<%= study_fields.number_field :position, :rows => 5, :class=>"form-control" -%>
@@ -81,15 +77,8 @@
}
$j(document).ready(function () {
- const urlSearchParams = new URLSearchParams(window.location.search);
- const params = Object.fromEntries(urlSearchParams.entries());
- const investigation_id = params["investigation_id"]
- // Prevent setting the hidden field on redirect (query string parameters are missing)
- if(investigation_id) {
- $j("#isa_study_study_investigation_id").val(investigation_id);
- $j("#study_investigation_id").val(investigation_id).change();
+ if (templates.length > 0) {
+ Templates.init($j('#template-attributes'));
}
-
- Templates.init($j('#template-attributes'));
});
diff --git a/app/views/models/simulate.html.erb b/app/views/models/simulate.html.erb
index 46e51245e5..2c181ade9b 100644
--- a/app/views/models/simulate.html.erb
+++ b/app/views/models/simulate.html.erb
@@ -1,4 +1,4 @@
-<% content_for(:buttons) { button_link_to("Back to #{t('model')}", 'back', model_path(@model,:version=>@display_model.version)) } %>
+<% content_for(:buttons) { button_link_to("Back to #{t('model')}", 'back', model_path(@model,:version=>@display_model.version, :code=>params[:code])) } %>
<%= render :partial => "general/item_title",:locals=>{:item=>@model,:title_postfix=>" - JWS Online #{t('model')} Simulation"} %>
diff --git a/app/views/projects/_buttons.html.erb b/app/views/projects/_buttons.html.erb
index 3c61ecc857..836c939262 100644
--- a/app/views/projects/_buttons.html.erb
+++ b/app/views/projects/_buttons.html.erb
@@ -63,21 +63,16 @@
<%= order_icon(item,current_user, order_investigations_project_path(item), item.investigations, 'investigation') %>
<% end %>
- <% if Seek::Config.n4h_enabled %>
+ <% if Seek::Config.n4h_enabled && item.extended_metadata != nil %>
<% else %>
- <% explanation = "The 'Publish to NFDI4Health GCHSH' item for #{text_for_resource(item).pluralize.downcase} in Server admin panel was deactivated by the admin." %>
+ <% explanation = "Your project does not include metadata, or The 'Publish to NFDI4Health GCHSH' item for #{text_for_resource(item).pluralize.downcase} in Server admin panel was deactivated by the admin." %>
<% end %>
-
-
-
-
-
<% if admin_logged_in? || item.can_manage? -%>
<%= delete_icon(item,current_user,"Any members will also be removed from the #{t('project')}, are you sure?") %>
<% end -%>
diff --git a/app/views/projects/_project_selector.html.erb b/app/views/projects/_project_selector.html.erb
index 5d12d5efd5..27a1ae2efc 100644
--- a/app/views/projects/_project_selector.html.erb
+++ b/app/views/projects/_project_selector.html.erb
@@ -6,6 +6,7 @@
<%
allow_nil ||= false
allow_all ||= false
+ allow_only_administered ||= false
resource ||= nil
selected_projects = resource ? resource.projects : []
@@ -13,13 +14,14 @@
possible_projects = Project.all
else
possible_projects = []
- possible_projects |= User.current_user.person.current_projects
+ possible_projects |= current_person.current_projects
if resource
possible_projects |= resource.projects
possible_projects |= resource.contributor.current_projects if resource.respond_to?(:contributor) && resource.contributor
end
end
+ possible_projects = possible_projects.select { |p| current_person.is_project_administrator? p } if allow_only_administered
possible_projects = possible_projects - selected_projects
possible_projects_json, selected_projects_json = [possible_projects, selected_projects].map do |projects|
diff --git a/app/views/sample_controlled_vocabs/_term_form_row.html.erb b/app/views/sample_controlled_vocabs/_term_form_row.html.erb
index aa600c85a7..ffb2edf3b5 100644
--- a/app/views/sample_controlled_vocabs/_term_form_row.html.erb
+++ b/app/views/sample_controlled_vocabs/_term_form_row.html.erb
@@ -1,5 +1,8 @@
+ <%= hidden_field_tag "sample_controlled_vocab[sample_controlled_vocab_terms_attributes][#{index}][id]", term.id %>
<%= hidden_field_tag "sample_controlled_vocab[sample_controlled_vocab_terms_attributes][#{index}][label]", term.label %>
<%= term.label %>
diff --git a/app/views/sample_types/_sample_attribute_form.html.erb b/app/views/sample_types/_sample_attribute_form.html.erb
index acb98013d0..7af118b931 100644
--- a/app/views/sample_types/_sample_attribute_form.html.erb
+++ b/app/views/sample_types/_sample_attribute_form.html.erb
@@ -47,13 +47,13 @@
<%= hidden_field_tag "#{field_name_prefix}[required]", '0' %>
- <%= check_box_tag "#{field_name_prefix}[required]", '1', required, disabled: !allow_required, data: { attr: "required" } %>
+ <%= check_box_tag "#{field_name_prefix}[required]", '1', required, class: "#{ allow_required ? '' : 'disabled' }", data: { attr: "required" } %>
<%= hidden_field_tag "#{field_name_prefix}[is_title]", '0' %>
- <%= check_box_tag "#{field_name_prefix}[is_title]", '1', is_title, class:'sample-type-is-title',disabled: seek_sample_multi || !allow_required %>
+ <%= check_box_tag "#{field_name_prefix}[is_title]", '1', is_title, class: "sample-type-is-title #{ allow_required ? '' : 'disabled' }"%>
diff --git a/app/views/single_pages/_duplicate_samples_panel.html.erb b/app/views/single_pages/_duplicate_samples_panel.html.erb
index b05064fdd6..6a623a4286 100644
--- a/app/views/single_pages/_duplicate_samples_panel.html.erb
+++ b/app/views/single_pages/_duplicate_samples_panel.html.erb
@@ -1,8 +1,9 @@
<% unless @possible_duplicates.nil? or @possible_duplicates.compact.none? %>
- <%= folding_panel("Possible Duplicates #{@possible_duplicates.size} ", true, :id => "duplicate-samples-panel", :body_options => {:id => "duplicate-samples-panel-content"},
- :help_text => "These new samples have been matched to already existing samples.") do %>
+ <%= folding_panel("Possible Duplicates #{@possible_duplicates.size} ", true, :id => "duplicate-samples-panel", :body_options => { :id => "duplicate-samples-panel-content" },
+ :help_text => "These new samples have been matched to already existing samples.") do %>
+
+
+
<% for dupl_sample in @possible_duplicates %>
- ' >
- class="btn glyphicon glyphicon-trash danger" style="background-color:#d9534f;color:white;" onclick=<%= "removeSample('duplicate-sample-#{dupl_sample['duplicate']['id']}')" %>> ' if key =='id' %>
- <% unless %w[uuid duplicate].include?(key) %>
- <% if @multiple_input_fields.include?(key)%>
-
- <% val.each do |sub_sample| %>
- ' data-attr_type="seek-sample-multi"><%= sub_sample['title'] %>
- <% end %>
-
- <% elsif @cv_list_fields.include?(key) %>
-
- <% val.each do |cv_term| %>
- <%= cv_term %>
- <% end %>
-
- <% elsif @registered_sample_fields.include?(key) %>
- ' data-attr_type="seek-sample"><%= val['title'] %> ' ><%= val %>
+ '>
+
+ class="btn glyphicon glyphicon-trash danger
+ " style="background-color:#d9534f;color:white;"
+ onclick=<%= "removeSample('duplicate-sample-#{dupl_sample['duplicate']['id']}')" %>>
+ <% dupl_sample.map do |key, val| %>
+ <% val = '' if key == 'id' %>
+ <% unless %w[uuid duplicate].include?(key) %>
+ <% if @multiple_input_fields.include?(key) %>
+
+ <% val.each do |sub_sample| %>
+ ' data-attr_type="seek-sample-multi"><%= sub_sample['title'] %>
+ <% end %>
+
+ <% elsif @cv_list_fields.include?(key) %>
+
+ <% val.each do |cv_term| %>
+ <%= cv_term %>
+ <% end %>
+
+ <% elsif @registered_sample_fields.include?(key) %>
+
+ ' data-attr_type="seek-sample"><%= val['title'] %>
+
+ <% else %>
+ '><%= val %>
+ <% end %>
<% end %>
<% end %>
- <% end %>
' class="danger">
<% dupl_sample['duplicate'].map do |key, val| %>
<% unless %w[uuid duplicate].include?(key) %>
- <% if @multiple_input_fields.include?(key)%>
+ <% if @multiple_input_fields.include?(key) %>
<% val.each do |sub_sample| %>
- '><%= sub_sample['title'] %>
+ '><%= sub_sample['title'] %>
<% end %>
<% elsif @cv_list_fields.include?(key) %>
<% val.each do |cv_term| %>
- <%= cv_term %>
+ <%= cv_term %>
<% end %>
<% elsif @registered_sample_fields.include?(key) %>
- '><%= val['title'] %> '><%= val['title'] %> <%= val%>
+ <%= val %>
<% end %>
<% end %>
<% end %>
-
+
<% end %>
+
<% end %>
diff --git a/app/views/single_pages/_new_samples_panel.html.erb b/app/views/single_pages/_new_samples_panel.html.erb
index 1b163ec3da..4fd18ae27b 100644
--- a/app/views/single_pages/_new_samples_panel.html.erb
+++ b/app/views/single_pages/_new_samples_panel.html.erb
@@ -1,8 +1,9 @@
<% unless @new_samples.nil? or @new_samples.compact.none? %>
- <%= folding_panel("New Samples #{@new_samples.size} ", true, :id => "new-samples-panel", :body_options => {:id => "new-samples-panel-content"},
- :help_text => "These samples have been detected as new samples and will be created.") do %>
+ <%= folding_panel("New Samples #{@new_samples.size} ", true, :id => "new-samples-panel", :body_options => { :id => "new-samples-panel-content" },
+ :help_text => "These samples have been detected as new samples and will be created.") do %>
+
+
+
<% for new_sample in @new_samples %>
<% new_sample_id = UUID.generate %>
- class="btn glyphicon glyphicon-trash danger" style="background-color:#d9534f;color:white;" onclick=<%= "removeSample('new-sample-#{new_sample_id}')" %>> ' if key =='id' %>
+
+ class="btn glyphicon glyphicon-trash danger
+ " style="background-color:#d9534f;color:white;"
+ onclick=<%= "removeSample('new-sample-#{new_sample_id}')" %>>
+ <% new_sample.map do |key, val| %>
+ <% val = '' if key == 'id' %>
<% unless key == 'uuid' %>
- <% if @multiple_input_fields.include?(key)%>
-
+ <% if @multiple_input_fields.include?(key) %>
+
<% val.each do |sub_sample| %>
- ' data-attr_type="seek-sample-multi"><%= sub_sample['title'] %>
+ ' data-attr_type="seek-sample-multi"><%= sub_sample['title'] %>
<% end %>
<% elsif @cv_list_fields.include?(key) %>
-
+
<% val.each do |cv_term| %>
- <%= cv_term %>
+ <%= cv_term %>
<% end %>
<% elsif @registered_sample_fields.include?(key) %>
-
- ' data-attr_type="seek-sample"><%= val['title'] %>
+
+ ' data-attr_type="seek-sample"><%= val['title'] %>
<% else %>
- <%= val %>
+ <%= val %>
<% end %>
<% end %>
<% end %>
<% end %>
+
<% end %>
diff --git a/app/views/single_pages/_unauthorized_samples_panel.html.erb b/app/views/single_pages/_unauthorized_samples_panel.html.erb
index 8ad35705d2..4d69e2a741 100644
--- a/app/views/single_pages/_unauthorized_samples_panel.html.erb
+++ b/app/views/single_pages/_unauthorized_samples_panel.html.erb
@@ -1,15 +1,17 @@
<% unless @unauthorized_samples.nil? or @unauthorized_samples.compact.none? %>
<% @can_upload = false %>
<% errors.append("There are unauthorized samples present in the spreadsheet.") %>
- <%= folding_panel("Unauthorized Samples", false, :id => "unauthorized-samples-panel", :body_options => {:id => "unauthorized-samples-panel-content"},
- :help_text => "Sample the current user does not have permission to edit them.") do %>
+ <%= folding_panel("Unauthorized Samples", false, :id => "unauthorized-samples-panel", :body_options => { :id => "unauthorized-samples-panel-content" },
+ :help_text => "Sample the current user does not have permission to edit them.") do %>
- You don't have permission to edit the samples listed below. Please contact the submitter of these samples or revert the changes in the spreadsheet to its original values.
+ You don't have permission to edit the samples listed below. Please contact the submitter of these samples or
+ revert the changes in the spreadsheet to its original values.
+
<% for key in @unauthorized_samples[0].keys %>
<% unless key == 'uuid' %>
@@ -17,6 +19,8 @@
<% end %>
<% end %>
+
+
<% for unauthorized_sample in @unauthorized_samples %>
' class="">
<% unauthorized_sample.map do |key, val| %>
@@ -24,7 +28,7 @@
<% if @multiple_input_fields.include?(key) %>
<% val.each do |sub_sample| %>
- '><%= sub_sample['title'] %>
+ '><%= sub_sample['title'] %>
<% end %>
<% else %>
@@ -34,6 +38,7 @@
<% end %>
<% end %>
+
<% end %>
diff --git a/app/views/single_pages/_update_samples_panel.html.erb b/app/views/single_pages/_update_samples_panel.html.erb
index 4349edd71b..1d339a2bba 100644
--- a/app/views/single_pages/_update_samples_panel.html.erb
+++ b/app/views/single_pages/_update_samples_panel.html.erb
@@ -1,8 +1,9 @@
<% unless @update_samples.nil? or @update_samples.compact.none? %>
- <%= folding_panel("Samples to Update #{@update_samples.size} ", true, :id => "existing-samples-panel", :body_options => {:id => "existing-samples-panel-content"},
- :help_text => "These samples were detected existing samples and will be updated.") do %>
+ <%= folding_panel("Samples to Update #{@update_samples.size} ", true, :id => "existing-samples-panel", :body_options => { :id => "existing-samples-panel-content" },
+ :help_text => "These samples were detected existing samples and will be updated.") do %>
+
+
+
<% for update_sample in @update_samples %>
- ' >
+ '>
<% db_sample = @authorized_db_samples.select { |s| s['id'] == update_sample['id'] }.first %>
- class="btn glyphicon glyphicon-trash danger" style="background-color:#d9534f;color:white;" onclick=<%= "removeSample('update-sample-#{update_sample['id']}')" %>>
+ class="btn glyphicon glyphicon-trash danger
+ " style="background-color:#d9534f;color:white;"
+ onclick=<%= "removeSample('update-sample-#{update_sample['id']}')" %>>
<% update_sample.map do |key, val| %>
<% unless key == 'uuid' %>
- <% if @multiple_input_fields.include?(key)%>
- ' >
+ <% if @multiple_input_fields.include?(key) %>
+ '>
<% val.each do |sub_sample| %>
' data-attr_type="seek-sample-multi"><%= sub_sample['title'] %>
<% end %>
<% elsif @cv_list_fields.include?(key) %>
- ' >
+ '>
<% val.each do |cv_term| %>
<%= cv_term %>
<% end %>
<% elsif @registered_sample_fields.include?(key) %>
- '>
+ '>
' data-attr_type="seek-sample"><%= val['title'] %>
<% else %>
- ' ><%= val %>
+ '><%= val %>
<% end %>
<% end %>
<% end %>
- ' >
+ '>
<% db_sample.map do |key, val| %>
<% unless key == 'uuid' %>
- <% if @multiple_input_fields.include?(key)%>
+ <% if @multiple_input_fields.include?(key) %>
<% val.each do |sub_sample| %>
'><%= sub_sample['title'] %>
@@ -63,6 +69,7 @@
<% end %>
<% end %>
+
<% end %>
diff --git a/app/views/single_pages/sample_sharing_bulk_change_preview.html.erb b/app/views/single_pages/sample_sharing_bulk_change_preview.html.erb
index c0f86b7e72..75ef3baced 100644
--- a/app/views/single_pages/sample_sharing_bulk_change_preview.html.erb
+++ b/app/views/single_pages/sample_sharing_bulk_change_preview.html.erb
@@ -73,4 +73,7 @@
});
}
+ $j('#add-person-permission-modal').on('click', '[data-dismiss="modal"]', function(e){e.stopPropagation();});
+ $j('#add-project-permission-modal').on('click', '[data-dismiss="modal"]', function(e){e.stopPropagation();});
+ $j('#add-programme-permission-modal').on('click', '[data-dismiss="modal"]', function(e){e.stopPropagation();});
\ No newline at end of file
diff --git a/app/views/single_pages/sample_upload_content.html.erb b/app/views/single_pages/sample_upload_content.html.erb
index 139062d970..b8b1f51dc2 100644
--- a/app/views/single_pages/sample_upload_content.html.erb
+++ b/app/views/single_pages/sample_upload_content.html.erb
@@ -9,7 +9,7 @@
<%# General information panel %>
- <%= render partial: 'general_panel' %>
+ <%= render partial: 'general_panel', locals: {errors: } %>
<%# New Samples panel %>
<%= render partial: 'new_samples_panel' %>
@@ -21,7 +21,7 @@
<%= render partial: 'duplicate_samples_panel' %>
<%# Panel for Sample with wrong permissions %>
- <%= render partial: 'unauthorized_samples_panel' %>
+ <%= render partial: 'unauthorized_samples_panel', locals: {errors: } %>
<% unless @can_upload %>
diff --git a/app/views/templates/_form.html.erb b/app/views/templates/_form.html.erb
index d7acd30e54..82d74be6c4 100644
--- a/app/views/templates/_form.html.erb
+++ b/app/views/templates/_form.html.erb
@@ -15,7 +15,7 @@
<%= f.text_area :description, class: "form-control rich-text-edit", rows: 5, id: "template-description" -%>
Template Information
- <% if @template.new_record? %>
-
-
- <% end %>
-
<%= f.label :level, 'ISA Level' %>
<%= f.text_field :level, { class: 'form-control', readonly: true } %>
@@ -61,7 +55,13 @@
To ensure compliance with the original template, please do not modify the existing ISA-tags and attributes in the form below. You can always add new attributes.
-
+ <% if @template.new_record? %>
+
+
+ <% end %>
+
+
Order
@@ -85,7 +85,7 @@
<% if @template.children.none? %>
- <%= button_link_to('Add new attribute', 'add', '#', id: 'add-attribute') %>
+ <%= button_link_to('Add new attribute', 'add', '#', id: 'add-attribute', class: @template.new_record? ? 'hidden' : '') %>
<% end %>
diff --git a/config/schedule.rb b/config/schedule.rb
index 0718d9b395..ba8c045099 100644
--- a/config/schedule.rb
+++ b/config/schedule.rb
@@ -47,6 +47,10 @@ def offset(off_hours)
runner "RegularMaintenanceJob.perform_later"
end
+every AuthLookupMaintenanceJob::RUN_PERIOD, at: offset(1) do
+ runner "AuthLookupMaintenanceJob.perform_later"
+end
+
every LifeMonitorStatusJob::PERIOD, at: offset(2) do
runner "LifeMonitorStatusJob.perform_later"
end
diff --git a/config/version.yml b/config/version.yml
index 9fe2f4b4c9..4de024972d 100644
--- a/config/version.yml
+++ b/config/version.yml
@@ -9,4 +9,4 @@
major: 1
minor: 15
-patch: 0-pre
+patch: 1
diff --git a/db/seeds/019_MDS_3_3_Study_gen.seeds.rb b/db/seeds/019_MDS_3_3_Study_gen.seeds.rb
index bfe2ec2e66..a4c930bb25 100644
--- a/db/seeds/019_MDS_3_3_Study_gen.seeds.rb
+++ b/db/seeds/019_MDS_3_3_Study_gen.seeds.rb
@@ -526,7 +526,7 @@ def create_sample_controlled_vocab_terms_attributes(array)
unless ExtendedMetadataType.where(title:'Nfdi4Health MDS 3.3', supported_type:'Study').any?
emt = ExtendedMetadataType.new(title: 'Nfdi4Health MDS 3.3', supported_type:'Study')
- emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_identifier_Project', sample_attribute_type: @string_type, sample_controlled_vocab: nil, description: 'Unique identifier of the resource used for identification within the NFDI4Health.', label: 'ID of the Project(*)')
+ emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_identifier_Study', sample_attribute_type: @string_type, sample_controlled_vocab: nil, description: 'Unique identifier of the resource used for identification within the NFDI4Health.', label: 'ID of the Project(*)')
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_classification_Study', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_classification_Study', supported_type:'ExtendedMetadata').first, label: 'Resource classification(*)' )
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_titles_Study', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata (multiple)').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_titles_Study', supported_type:'ExtendedMetadata').first, label: 'Title(s)/name(s) of the Study' )
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_acronyms_Study', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata (multiple)').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_acronyms_Study', supported_type:'ExtendedMetadata').first, label: 'Acronym(s) of the Study' )
diff --git a/db/seeds/020_MDS_3_3_Investigation_gen.seeds.rb b/db/seeds/020_MDS_3_3_Investigation_gen.seeds.rb
index cbed714231..b1b409257c 100644
--- a/db/seeds/020_MDS_3_3_Investigation_gen.seeds.rb
+++ b/db/seeds/020_MDS_3_3_Investigation_gen.seeds.rb
@@ -526,7 +526,7 @@ def create_sample_controlled_vocab_terms_attributes(array)
unless ExtendedMetadataType.where(title:'Nfdi4Health MDS 3.3', supported_type:'Investigation').any?
emt = ExtendedMetadataType.new(title: 'Nfdi4Health MDS 3.3', supported_type:'Investigation')
- emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_identifier_Project', sample_attribute_type: @string_type, sample_controlled_vocab: nil, description: 'Unique identifier of the resource used for identification within the NFDI4Health.', label: 'ID of the Project(*)')
+ emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_identifier_Investigation', sample_attribute_type: @string_type, sample_controlled_vocab: nil, description: 'Unique identifier of the resource used for identification within the NFDI4Health.', label: 'ID of the Project(*)')
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_classification_Investigation', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_classification_Investigation', supported_type:'ExtendedMetadata').first, label: 'Resource classification(*)' )
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_titles_Investigation', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata (multiple)').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_titles_Investigation', supported_type:'ExtendedMetadata').first, label: 'Title(s)/name(s) of the Investigation' )
emt.extended_metadata_attributes << ExtendedMetadataAttribute.new(title: 'Resource_acronyms_Investigation', sample_attribute_type: SampleAttributeType.where(title:'Linked Extended Metadata (multiple)').first , linked_extended_metadata_type: ExtendedMetadataType.where(title:'Resource_acronyms_Investigation', supported_type:'ExtendedMetadata').first, label: 'Acronym(s) of the Investigation' )
diff --git a/docker-compose-relative-root.yml b/docker-compose-relative-root.yml
index c9f214cbbf..7576847289 100644
--- a/docker-compose-relative-root.yml
+++ b/docker-compose-relative-root.yml
@@ -14,7 +14,7 @@ services:
seek: # The SEEK application
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek
command: docker/entrypoint.sh
@@ -43,7 +43,7 @@ services:
seek_workers: # The SEEK delayed job workers
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek-workers
command: docker/start_workers.sh
restart: always
diff --git a/docker-compose-virtuoso.yml b/docker-compose-virtuoso.yml
index 626485b5a5..8a3d78f05c 100644
--- a/docker-compose-virtuoso.yml
+++ b/docker-compose-virtuoso.yml
@@ -12,7 +12,7 @@ services:
seek: # The SEEK application
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek
command: docker/entrypoint.sh
restart: always
@@ -39,7 +39,7 @@ services:
seek_workers: # The SEEK delayed job workers
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek-workers
command: docker/start_workers.sh
restart: always
diff --git a/docker-compose-with-email.yml b/docker-compose-with-email.yml
index 19beb35095..51685ce1d0 100644
--- a/docker-compose-with-email.yml
+++ b/docker-compose-with-email.yml
@@ -14,7 +14,7 @@ services:
seek: # The SEEK application
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek
command: docker/entrypoint.sh
@@ -43,7 +43,7 @@ services:
seek_workers: # The SEEK delayed job workers
#build: .
- image: fairdom/seek:main
+ image: fairdom/seek:1.15
container_name: seek-workers
command: docker/start_workers.sh
restart: always
diff --git a/docker-compose.yml b/docker-compose.yml
index e7dec9dd7e..c9dd6960b2 100644
--- a/docker-compose.yml
+++ b/docker-compose.yml
@@ -14,7 +14,7 @@ services:
seek: # The SEEK application
#build: .
- image: fairdom/seek:1.15-dev
+ image: fairdom/seek:1.15
container_name: seek
command: docker/entrypoint.sh
@@ -42,7 +42,7 @@ services:
seek_workers: # The SEEK delayed job workers
#build: .
- image: fairdom/seek:1.15-dev
+ image: fairdom/seek:1.15
container_name: seek-workers
command: docker/start_workers.sh
restart: always
diff --git a/lib/nfdi4health/csh_client.rb b/lib/nfdi4health/csh_client.rb
index 2b44a5ce3d..5a96a0fc93 100644
--- a/lib/nfdi4health/csh_client.rb
+++ b/lib/nfdi4health/csh_client.rb
@@ -4,24 +4,17 @@ module Nfdi4Health
class Client
attr_accessor :transformed
- def initialize(endpoint)
- #@endpoint = RestClient::Resource.new(endpoint)
-
-
- end
def publish_csh(project_transformed,url,token)
content_length = project_transformed.bytesize
- headers = { content_type: 'application/json',Content_Length: content_length ,Host: 'csh.nfdi4health.de', Authorization: "Bearer " + token
+ headers = { content_type: 'application/json',Content_Length: content_length ,Host: 'csh.nfdi4health.de', Authorization: 'Bearer ' + token
}
@endpoint = RestClient::Request.execute(method: :post, url: url, payload: project_transformed, headers: headers)
end
def send_transforming_api(project,url)
- #raise project.inspect
@transformed = RestClient::Request.execute(method: :post, url: url,payload: project, headers: { content_type: :json, accept: :json }).body
- #@endpoint['publish'].post(project, content_type: 'application/json')
end
@@ -44,6 +37,58 @@ def get_token(url,user,password)
)
end
-
+ def handle_restclient_error(e, name_server)
+ case name_server
+ when 'get_token'
+ case e.response.code
+ when 400
+ 'Token:CODE400- Bad Request: The server could not understand the request.'
+ when 401
+ 'Token:CODE401- Unauthorized: Access is denied due to invalid credentials.'
+ when 403
+ 'Token:CODE403- Forbidden: You do not have the necessary permissions to access this resource.'
+ when 404
+ 'Token:CODE404- Not Found: The requested resource could not be found.'
+ when 500
+ 'Token:CODE500- Internal Server Error: The server encountered an error and could not complete your request.'
+ else
+ "An unexpected error occurred: #{e.response}"
+ end
+ when 'send_transforming_api'
+ case e.response.code
+ when 400
+ 'Transorm:CODE400- Bad Request: The server could not understand the request.'
+ when 401
+ 'Transorm:CODE401- Unauthorized: Access is denied due to invalid credentials.'
+ when 403
+ 'Transorm:CODE403- Forbidden: You do not have the necessary permissions to access this resource.'
+ when 404
+ 'Transorm:CODE404- Not Found: The requested resource could not be found.'
+ when 500
+ 'Transorm:CODE500- Internal Server Error: The server encountered an error and could not complete your request.'
+ else
+ "An unexpected error occurred: #{e.response}"
+ end
+ when 'publish_csh'
+ case e.response.code
+ when 200
+ 'pub_csh:CODE200- No new draft version created because uploaded resource contains no changes'
+ when 400
+ 'pub_csh:CODE400- Bad Request: The server could not understand the request.'
+ when 401
+ 'pub_csh:CODE401- Not allowed to edit resource. User must either be the original creator of the resource or have been added as a collaborator.'
+ when 403
+ 'pub_csh:CODE403- Forbidden: You do not have the necessary permissions to access this resource.'
+ when 404
+ 'pub_csh:CODE404- Not Found: The requested resource could not be found.'
+ when 422
+ JSON.parse(JSON.parse(e.response.to_json))["error"]["message"]
+ when 500
+ 'pub_csh:CODE500- Internal Server Error: The server encountered an error and could not complete your request.'
+ else
+ "An unexpected error occurred: #{e.response}"
+ end
+ end
+ end
end
end
diff --git a/lib/ro_crate/workflow_crate.rb b/lib/ro_crate/workflow_crate.rb
index f222760f23..3672b3245d 100644
--- a/lib/ro_crate/workflow_crate.rb
+++ b/lib/ro_crate/workflow_crate.rb
@@ -50,7 +50,7 @@ def main_workflow_cwl=(entity)
end
def test_suites
- ((mentions || []) | (about || [])).select { |entity| entity.has_type?('TestSuite') }
+ (Array(mentions) | Array(about)).select { |entity| entity.has_type?('TestSuite') }
end
def find_entry(path)
diff --git a/lib/scrapers/github_scraper.rb b/lib/scrapers/github_scraper.rb
index 4b8e6c42eb..53058767bd 100644
--- a/lib/scrapers/github_scraper.rb
+++ b/lib/scrapers/github_scraper.rb
@@ -73,7 +73,7 @@ def create_resources(repositories)
end
tags = [tag]
else
- tags = repo.remote_refs[:tags]&.map { |t| t[:name] } || []
+ tags = all_tags(repo)
if tags.empty?
output.puts " No tags found to register"
next
@@ -175,5 +175,9 @@ def latest_tag(repo)
tag
end
+
+ def all_tags(repo)
+ repo.remote_refs[:tags]&.map { |t| t[:name] } || []
+ end
end
end
diff --git a/lib/scrapers/nfcore_scraper.rb b/lib/scrapers/nfcore_scraper.rb
index a85ba76619..3adace4899 100644
--- a/lib/scrapers/nfcore_scraper.rb
+++ b/lib/scrapers/nfcore_scraper.rb
@@ -5,6 +5,7 @@ class NfcoreScraper < GithubScraper
def list_repositories
repos = JSON.parse(RestClient.get('https://nf-co.re/pipelines.json'))['remote_workflows']
+ repos.reject! { |r| r['archived'] || r['disabled'] }
@nfcore_pipelines = {} # Store repo metadata from pipelines.json to fetch main branch name and topics later
repos.each do |r|
r['clone_url'] = "https://github.com/#{r['full_name']}.git"
@@ -22,6 +23,14 @@ def topics(repo)
@nfcore_pipelines.dig(repo.remote, 'topics') || []
end
+ def latest_tag(repo)
+ all_tags(repo).last
+ end
+
+ def all_tags(repo)
+ (@nfcore_pipelines.dig(repo.remote, 'releases') || []).sort_by { |t| Date.parse(t['published_at']) }.map { |t| t['tag_name'] } - ['dev']
+ end
+
def workflow_wizard(repo, tag)
GitWorkflowWizard.new(workflow_class: WorkflowClass.find_by_key('nextflow'),
params: {
diff --git a/lib/seek/acts_as_asset.rb b/lib/seek/acts_as_asset.rb
index 1c5de8cb75..e8abef8742 100644
--- a/lib/seek/acts_as_asset.rb
+++ b/lib/seek/acts_as_asset.rb
@@ -23,6 +23,10 @@ def is_downloadable_asset?
is_asset? && is_downloadable?
end
+ def contains_downloadable_items?
+ respond_to?(:all_content_blobs) && all_content_blobs.compact.any?(&:is_downloadable?) || is_git_versioned?
+ end
+
def have_misc_links?
self.class.have_misc_links?
end
diff --git a/lib/seek/acts_as_asset/content_blobs.rb b/lib/seek/acts_as_asset/content_blobs.rb
index 6ff53183ba..2ddc88cc24 100644
--- a/lib/seek/acts_as_asset/content_blobs.rb
+++ b/lib/seek/acts_as_asset/content_blobs.rb
@@ -10,11 +10,6 @@ module ClassMethods
end
module InstanceMethods
-
- def contains_downloadable_items?
- all_content_blobs.compact.any?(&:is_downloadable?)
- end
-
def all_content_blobs
if self.respond_to?(:content_blobs)
content_blobs
diff --git a/lib/seek/config.rb b/lib/seek/config.rb
index 2f6df9fe27..a363d1986e 100644
--- a/lib/seek/config.rb
+++ b/lib/seek/config.rb
@@ -336,6 +336,10 @@ def templates_enabled
isa_json_compliance_enabled
end
+ def strains_enabled
+ organisms_enabled
+ end
+
def omniauth_elixir_aai_config
if omniauth_elixir_aai_legacy_mode
{
diff --git a/lib/seek/content_extraction.rb b/lib/seek/content_extraction.rb
index b5e4190731..5168e878d8 100644
--- a/lib/seek/content_extraction.rb
+++ b/lib/seek/content_extraction.rb
@@ -69,7 +69,6 @@ def extract_text_from_pdf
Docsplit.extract_text(pdf_filepath, output: converted_storage_directory) unless File.exist?(txt_filepath)
File.read(txt_filepath)
rescue Docsplit::ExtractionFailed => e
- extract_text_from_pdf if double_check_mime_type
Rails.logger.error("Problem with extracting text from pdf #{id} #{e}")
''
end
@@ -78,11 +77,7 @@ def extract_text_from_pdf
def to_csv(sheet = 1, trim = false)
return '' unless is_excel?
- begin
- spreadsheet_to_csv(filepath, sheet, trim, Seek::Config.jvm_memory_allocation)
- rescue SysMODB::SpreadsheetExtractionException
- to_csv(sheet, trim) if double_check_mime_type
- end
+ spreadsheet_to_csv(filepath, sheet, trim, Seek::Config.jvm_memory_allocation)
end
def extract_csv()
@@ -90,34 +85,11 @@ def extract_csv()
end
def to_spreadsheet_xml
- begin
- spreadsheet_to_xml(filepath, Seek::Config.jvm_memory_allocation)
- rescue SysMODB::SpreadsheetExtractionException=>e
- if double_check_mime_type
- to_spreadsheet_xml
- else
- raise e
- end
- end
+ spreadsheet_to_xml(filepath, Seek::Config.jvm_memory_allocation)
end
private
- # checks the type using mime magic, and updates if found to be different. This is to help cases where extraction
- # fails due to the mime type being incorrectly set
- #
- # @return boolean - the mime type was changed
- def double_check_mime_type
- suggested_type = mime_magic_content_type
- if suggested_type && suggested_type != content_type
- update_column(:content_type, suggested_type)
- true
- else
- false
- end
- end
-
-
# filters special characters, keeping alphanumeric characters, hyphen ('-'), underscore('_') and newlines
def filter_text_content(content)
content.gsub(/[^-_0-9a-z \n]/i, ' ')
diff --git a/lib/seek/isa_templates/template_attributes_schema_test.json b/lib/seek/isa_templates/template_attributes_schema_test.json
new file mode 100644
index 0000000000..23528693ba
--- /dev/null
+++ b/lib/seek/isa_templates/template_attributes_schema_test.json
@@ -0,0 +1,99 @@
+{
+ "$schema": "http://json-schema.org/draft-04/schema",
+ "title": "ISA tempalte attribute schema",
+ "description": "JSON-schema representing an ISA template attribute in DataHub",
+ "type": "object",
+ "properties": {
+ "iri": {
+ "anyOf": [
+ {
+ "type": "string",
+ "format": "uri"
+ },
+ {
+ "type": "null"
+ }
+ ]
+ },
+ "name": { "type": "string" },
+ "description": { "type": "string" },
+ "required": {
+ "anyOf": [
+ {
+ "type": "boolean"
+ },
+ {
+ "type": "null"
+ }
+ ]
+ },
+ "ontology": {
+ "anyOf": [
+ {
+ "type": "object",
+ "properties": {
+ "name": { "type": "string" },
+ "version": {
+ "anyOf": [{ "type": "string" }, { "type": "number" }]
+ },
+ "description": { "type": "string" },
+ "rootTermURI": { "type": "string", "format": "uri" }
+ }
+ },
+ {
+ "type": "null"
+ }
+ ]
+ },
+ "dataType": {
+ "type": "string",
+ "enum": [
+ "String attribute type 1",
+ "Sample multi attribute type 1"
+ ]
+ },
+ "CVList": {
+ "anyOf": [
+ {
+ "type": "array"
+ },
+ {
+ "type": "null"
+ }
+ ]
+ },
+ "isaTag": {
+ "anyOf": [
+ {
+ "type": "string",
+ "enum": [
+ "source",
+ "sample",
+ "protocol",
+ "source_characteristic",
+ "sample_characteristic",
+ "other_material",
+ "other_material_characteristic",
+ "data_file",
+ "data_file_comment",
+ "parameter_value"
+ ]
+ },
+ {
+ "type": "null"
+ }
+ ]
+ },
+ "title": {
+ "anyOf": [
+ {
+ "type": "boolean"
+ },
+ {
+ "type": "null"
+ }
+ ]
+ }
+ },
+ "additionalProperties": false
+}
diff --git a/lib/seek/isa_templates/template_extractor.rb b/lib/seek/isa_templates/template_extractor.rb
index d0eb8d6f2c..4f11d633db 100644
--- a/lib/seek/isa_templates/template_extractor.rb
+++ b/lib/seek/isa_templates/template_extractor.rb
@@ -4,25 +4,24 @@ module Seek
module IsaTemplates
module TemplateExtractor
def self.extract_templates
- `touch #{resultfile}`
+ FileUtils.touch(resultfile)
result = StringIO.new
-
seed_isa_tags
disable_authorization_checks do
client = Ebi::OlsClient.new
project = Project.find_or_create_by(title: 'Default Project')
directory = Seek::Config.append_filestore_path('source_types')
- directory_files = Dir.exist?(directory) ? Dir.glob("#{directory}/*.json") : []
- raise 'Make sure to upload files that have the ".json" extension. Make sure to upload files that have the ".json" extension. #{@errors.map { |e| "#{e}" }.join('')} ".html_safe if @errors.present?
+
write_result(result.string)
- rescue Exception => e
- puts e
+ rescue StandardError => e
write_result("error(s): #{e}")
+ raise e
ensure
- `rm -f #{lockfile}`
+ FileUtils.rm_f(lockfile)
+ FileUtils.rm_f(@directory_files) unless @directory_files.blank?
end
def self.init_template(metadata)
@@ -148,8 +154,13 @@ def self.check_json_file(file)
end
def self.valid_isa_json?(json)
- definitions_path =
- File.join(Rails.root, 'lib', 'seek', 'isa_templates', 'template_schema.json')
+ # read the schema file depending on the environment
+ definitions_path = if Rails.env.test?
+ File.join(Rails.root, 'lib', 'seek', 'isa_templates', 'template_schema_test.json')
+ else
+ File.join(Rails.root, 'lib', 'seek', 'isa_templates', 'template_schema.json')
+ end
+
if File.readable?(definitions_path)
JSON::Validator.fully_validate_json(definitions_path, json)
else
@@ -158,8 +169,10 @@ def self.valid_isa_json?(json)
end
def self.get_sample_attribute_type(title)
- sa = SampleAttributeType.find_by(title: title)
- raise "Could not find a Sample Attribute named '#{title}'" if sa.nil?
+ sa = SampleAttributeType.find_by(title:)
+ @errors.append "Could not find a Sample Attribute Type named '#{title}' " if sa.nil?
+
+ return if sa.nil?
sa.id
end
@@ -167,8 +180,8 @@ def self.get_sample_attribute_type(title)
def self.get_isa_tag_id(title)
return nil if title.blank?
- it = IsaTag.find_by(title: title)
- raise "Could not find an ISA Tag named '#{title}'" if it.nil?
+ it = IsaTag.find_by(title:)
+ @errors.append "Could not find an ISA Tag named '#{title}' " if it.nil?
it.id
end
diff --git a/lib/seek/isa_templates/template_schema_test.json b/lib/seek/isa_templates/template_schema_test.json
new file mode 100644
index 0000000000..192bab0760
--- /dev/null
+++ b/lib/seek/isa_templates/template_schema_test.json
@@ -0,0 +1,42 @@
+{
+ "$schema": "http://json-schema.org/draft-04/schema",
+ "title": "ISA template schema",
+ "description": "JSON-schema representing an ISA template in DataHub",
+ "type": "object",
+ "properties": {
+ "data": {
+ "type": "array",
+ "items": {
+ "type": "object",
+ "properties": {
+ "metadata": {
+ "type": "object",
+ "properties": {
+ "name": { "type": "string" },
+ "group": { "type": "string" },
+ "group_order": { "type": "number" },
+ "temporary_name": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "version": { "anyOf": [{ "type": "string" }, { "type": "number" }] },
+ "isa_config": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "isa_measurement_type": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "isa_technology_type": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "isa_protocol_type": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "repo_schema_id": { "anyOf": [{ "type": "string" }, { "type": "null" }] },
+ "organism": { "type": "string" },
+ "level": { "type": "string" }
+ },
+ "additionalProperties": false
+ },
+ "data": {
+ "type": "array",
+ "items": {
+ "$ref": "template_attributes_schema_test.json#"
+ }
+ }
+ },
+ "additionalProperties": false
+ }
+ }
+ },
+ "additionalProperties": false
+}
diff --git a/lib/seek/samples/extractor.rb b/lib/seek/samples/extractor.rb
index ba1222931a..4675091846 100644
--- a/lib/seek/samples/extractor.rb
+++ b/lib/seek/samples/extractor.rb
@@ -24,14 +24,18 @@ def persist(user = User.current_user)
if samples.any?
Sample.transaction do
+ #copy policy and trigger callbacks
samples.each do |sample|
+ policy = @data_file.policy.deep_copy
+ policy.save(validate: false)
+ sample.policy = policy
sample.run_callbacks(:save) { false }
sample.run_callbacks(:create) { false }
end
last_id = Sample.last.try(:id) || 0
sample_type = samples.first.sample_type
- project_ids = samples.first.project_ids
+ project_ids = samples.first.project_ids
Sample.import(samples, validate: false, batch_size: 2000)
SampleTypeUpdateJob.new(sample_type, false).queue_job
diff --git a/lib/seek/samples/sample_type_editing_constraints.rb b/lib/seek/samples/sample_type_editing_constraints.rb
index 39f5a64cd7..d5c35aa78d 100644
--- a/lib/seek/samples/sample_type_editing_constraints.rb
+++ b/lib/seek/samples/sample_type_editing_constraints.rb
@@ -22,6 +22,7 @@ def samples?
def allow_required?(attr)
if attr.is_a?(SampleAttribute)
return true if attr.new_record?
+ return false if inherited?(attr)
attr = attr.accessor_name
end
diff --git a/lib/seek/versioned_resource.rb b/lib/seek/versioned_resource.rb
index 4bf7ab5794..31979c487e 100644
--- a/lib/seek/versioned_resource.rb
+++ b/lib/seek/versioned_resource.rb
@@ -59,12 +59,6 @@ def attributions_objects
end
end
- # assumes all versioned resources are also taggable
-
- def contains_downloadable_items?
- all_content_blobs.compact.any?(&:is_downloadable?)
- end
-
def all_content_blobs
blobs = []
blobs << content_blob if respond_to?(:content_blob)
diff --git a/lib/tasks/seek_upgrades.rake b/lib/tasks/seek_upgrades.rake
index ebd435c9ef..769e95aed1 100644
--- a/lib/tasks/seek_upgrades.rake
+++ b/lib/tasks/seek_upgrades.rake
@@ -11,9 +11,6 @@ namespace :seek do
decouple_extracted_samples_policies
decouple_extracted_samples_projects
link_sample_datafile_attributes
- strip_sample_attribute_pids
- rename_registered_sample_multiple_attribute_type
- remove_ontology_attribute_type
db:seed:007_sample_attribute_types
db:seed:001_create_controlled_vocabs
db:seed:017_minimal_starter_isa_templates
@@ -55,53 +52,6 @@ namespace :seek do
end
end
- task(rename_registered_sample_multiple_attribute_type: [:environment]) do
- attr = SampleAttributeType.find_by(title:'Registered Sample (multiple)')
- if attr
- puts "..... Renaming sample attribute type 'Registered Sample (multiple)' to 'Registered Sample List'."
- attr.update_column(:title, 'Registered Sample List')
- end
- end
-
- task(strip_sample_attribute_pids: [:environment]) do
- puts '..... Stripping Sample Attribute PIds ...'
- n = 0
- SampleAttribute.where('pid is NOT NULL AND pid !=?','').each do |attribute|
- new_pid = attribute.pid.strip
- if attribute.pid != new_pid
- attribute.update_column(:pid, new_pid)
- n += 1
- end
- end
- puts "..... Finished stripping #{n} Sample Attribute PIds."
- end
-
- task(remove_ontology_attribute_type: [:environment]) do
- ontology_attr_type = SampleAttributeType.find_by(title:'Ontology')
- cv_attr_type = SampleAttributeType.find_by(title:'Controlled Vocabulary')
- if ontology_attr_type
- puts '..... Removing the Ontology sample attribute type ...'
- if cv_attr_type
- if ontology_attr_type.sample_attributes.any?
- puts "..... Moving #{ontology_attr_type.sample_attributes.count} sample attributes to Controlled Vocabulary"
- ontology_attr_type.sample_attributes.each do |attr_type|
- attr_type.update_column(:sample_attribute_type_id, cv_attr_type.id)
- end
- end
- if ontology_attr_type.isa_template_attributes.any?
- puts "..... Moving #{ontology_attr_type.isa_template_attributes.count} template attributes to Controlled Vocabulary"
- ontology_attr_type.isa_template_attributes.each do |attr_type|
- attr_type.update_column(:sample_attribute_type_id, cv_attr_type.id)
- end
- end
-
- ontology_attr_type.destroy
- else
- puts '..... Target Controlled Vocabulary attribute type not found'
- end
- end
- end
-
task(decouple_extracted_samples_policies: [:environment]) do
puts '..... creating independent policies for extracted samples (this can take a while if there are many samples) ...'
affected_samples = []
@@ -112,16 +62,17 @@ namespace :seek do
Permission.skip_callback :commit, :after, :queue_rdf_generation_job
disable_authorization_checks do
-
- Sample.includes(:originating_data_file).find_each do |sample|
- # check if the sample was extracted from a datafile and their policies are linked
- if sample.extracted? && sample.policy_id == sample.originating_data_file&.policy_id
- policy = sample.policy.deep_copy
- policy.save
- sample.update_column(:policy_id, policy.id)
- putc('.')
- affected_samples << sample
+ Sample.includes(:originating_data_file).in_batches(of: 250) do |batch|
+ batch.each do |sample|
+ # check if the sample was extracted from a datafile and their policies are linked
+ if sample.extracted? && sample.policy_id == sample.originating_data_file&.policy_id
+ policy = sample.policy.deep_copy
+ policy.save
+ sample.update_column(:policy_id, policy.id)
+ affected_samples << sample
+ end
end
+ putc('.')
end
end
puts "..... finished creating independent policies of #{affected_samples.count} extracted samples"
@@ -134,24 +85,27 @@ namespace :seek do
task(decouple_extracted_samples_projects: [:environment]) do
puts '..... copying project ids for extracted samples...'
- decoupled = 0
+ decoupled_count = 0
hash_array = []
disable_authorization_checks do
- Sample.find_each do |sample|
- # check if the sample was extracted from a datafile and their projects are linked
- if sample.extracted? && sample.project_ids.empty?
- sample.originating_data_file.project_ids.each do |project_id|
- hash_array << { project_id: project_id, sample_id: sample.id }
+ Sample.includes(:originating_data_file).where.missing(:projects).in_batches(of: 250) do |batch|
+ batch.each do |sample|
+ # check if the sample was extracted from a datafile and their projects are linked
+ if sample.extracted? && sample.project_ids.empty?
+ sample.originating_data_file.project_ids.each do |project_id|
+ hash_array << { project_id: project_id, sample_id: sample.id }
+ end
+ decoupled_count += 1
end
- decoupled += 1
end
+ putc('.')
end
unless hash_array.empty?
class ProjectsSample < ActiveRecord::Base; end;
ProjectsSample.insert_all(hash_array)
end
end
- puts " ... finished copying project ids of #{decoupled.to_s} extracted samples"
+ puts " ... finished copying project ids of #{decoupled_count.to_s} extracted samples"
end
task(link_sample_datafile_attributes: [:environment]) do
diff --git a/public/api/examples/assayPatch.json b/public/api/examples/assayPatch.json
index 3466c4d3eb..f6d0c2c436 100644
--- a/public/api/examples/assayPatch.json
+++ b/public/api/examples/assayPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "assays",
- "id": "52",
+ "id": "112",
"attributes": {
"title": "A Maximal Assay",
"assay_class": {
@@ -20,7 +20,7 @@
"permissions": [
{
"resource": {
- "id": "343",
+ "id": "1115",
"type": "projects"
},
"access": "manage"
@@ -34,14 +34,14 @@
"relationships": {
"study": {
"data": {
- "id": "57",
+ "id": "143",
"type": "studies"
}
},
"publications": {
"data": [
{
- "id": "24",
+ "id": "46",
"type": "publications"
}
]
@@ -49,7 +49,7 @@
"organisms": {
"data": [
{
- "id": "13",
+ "id": "64",
"type": "organisms"
}
]
@@ -57,7 +57,7 @@
"sops": {
"data": [
{
- "id": "22",
+ "id": "80",
"type": "sops"
}
]
@@ -65,7 +65,7 @@
"data_files": {
"data": [
{
- "id": "18",
+ "id": "58",
"type": "data_files"
}
]
@@ -73,7 +73,7 @@
"documents": {
"data": [
{
- "id": "32",
+ "id": "103",
"type": "documents"
}
]
@@ -81,7 +81,7 @@
"creators": {
"data": [
{
- "id": "328",
+ "id": "951",
"type": "people"
}
]
diff --git a/public/api/examples/assayPatchResponse.json b/public/api/examples/assayPatchResponse.json
index a1417956d6..43ed4935e0 100644
--- a/public/api/examples/assayPatchResponse.json
+++ b/public/api/examples/assayPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "52",
+ "id": "112",
"type": "assays",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "343",
+ "id": "1115",
"type": "projects"
},
"access": "manage"
@@ -43,10 +43,10 @@
],
"creators": [
{
- "profile": "/people/328",
+ "profile": "/people/951",
"family_name": "Last",
- "given_name": "Person272",
- "affiliation": "An Institution: 330",
+ "given_name": "Person763",
+ "affiliation": "An Institution: 978",
"orcid": null
}
]
@@ -55,7 +55,7 @@
"creators": {
"data": [
{
- "id": "328",
+ "id": "951",
"type": "people"
}
]
@@ -63,7 +63,7 @@
"submitter": {
"data": [
{
- "id": "328",
+ "id": "951",
"type": "people"
}
]
@@ -71,7 +71,7 @@
"organisms": {
"data": [
{
- "id": "13",
+ "id": "64",
"type": "organisms"
}
]
@@ -84,7 +84,7 @@
"people": {
"data": [
{
- "id": "328",
+ "id": "951",
"type": "people"
}
]
@@ -92,31 +92,36 @@
"projects": {
"data": [
{
- "id": "343",
+ "id": "1115",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "59",
+ "id": "152",
"type": "investigations"
}
},
"study": {
"data": {
- "id": "57",
+ "id": "143",
"type": "studies"
}
},
"data_files": {
"data": [
{
- "id": "18",
+ "id": "58",
"type": "data_files"
}
]
},
+ "samples": {
+ "data": [
+
+ ]
+ },
"models": {
"data": [
@@ -125,7 +130,7 @@
"sops": {
"data": [
{
- "id": "22",
+ "id": "80",
"type": "sops"
}
]
@@ -133,7 +138,7 @@
"publications": {
"data": [
{
- "id": "24",
+ "id": "46",
"type": "publications"
}
]
@@ -146,21 +151,21 @@
"documents": {
"data": [
{
- "id": "32",
+ "id": "103",
"type": "documents"
}
]
}
},
"links": {
- "self": "/assays/52"
+ "self": "/assays/112"
},
"meta": {
- "created": "2022-06-07T14:13:12.000Z",
- "modified": "2022-06-07T14:13:13.000Z",
+ "created": "2024-06-20T12:31:34.000Z",
+ "modified": "2024-06-20T12:31:35.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "e3d848d0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "f44538c0-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/assayPost.json b/public/api/examples/assayPost.json
index 073cdc1b1f..85876b0998 100644
--- a/public/api/examples/assayPost.json
+++ b/public/api/examples/assayPost.json
@@ -19,7 +19,7 @@
"permissions": [
{
"resource": {
- "id": "293",
+ "id": "1053",
"type": "projects"
},
"access": "manage"
@@ -33,14 +33,14 @@
"relationships": {
"study": {
"data": {
- "id": "40",
+ "id": "124",
"type": "studies"
}
},
"publications": {
"data": [
{
- "id": "19",
+ "id": "41",
"type": "publications"
}
]
@@ -48,7 +48,7 @@
"organisms": {
"data": [
{
- "id": "8",
+ "id": "59",
"type": "organisms"
}
]
@@ -56,7 +56,7 @@
"sops": {
"data": [
{
- "id": "17",
+ "id": "75",
"type": "sops"
}
]
@@ -64,15 +64,23 @@
"data_files": {
"data": [
{
- "id": "13",
+ "id": "53",
"type": "data_files"
}
]
},
+ "samples": {
+ "data": [
+ {
+ "id": "33",
+ "type": "samples"
+ }
+ ]
+ },
"documents": {
"data": [
{
- "id": "27",
+ "id": "98",
"type": "documents"
}
]
@@ -80,7 +88,7 @@
"creators": {
"data": [
{
- "id": "283",
+ "id": "894",
"type": "people"
}
]
diff --git a/public/api/examples/assayPostResponse.json b/public/api/examples/assayPostResponse.json
index e52bd6c88b..a65046b0e2 100644
--- a/public/api/examples/assayPostResponse.json
+++ b/public/api/examples/assayPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "38",
+ "id": "96",
"type": "assays",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "293",
+ "id": "1053",
"type": "projects"
},
"access": "manage"
@@ -43,10 +43,10 @@
],
"creators": [
{
- "profile": "/people/283",
+ "profile": "/people/894",
"family_name": "Last",
- "given_name": "Person232",
- "affiliation": "An Institution: 285",
+ "given_name": "Person711",
+ "affiliation": "An Institution: 921",
"orcid": null
}
]
@@ -55,7 +55,7 @@
"creators": {
"data": [
{
- "id": "283",
+ "id": "894",
"type": "people"
}
]
@@ -63,7 +63,7 @@
"submitter": {
"data": [
{
- "id": "283",
+ "id": "894",
"type": "people"
}
]
@@ -71,7 +71,7 @@
"organisms": {
"data": [
{
- "id": "8",
+ "id": "59",
"type": "organisms"
}
]
@@ -84,7 +84,7 @@
"people": {
"data": [
{
- "id": "283",
+ "id": "894",
"type": "people"
}
]
@@ -92,31 +92,39 @@
"projects": {
"data": [
{
- "id": "293",
+ "id": "1053",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "42",
+ "id": "133",
"type": "investigations"
}
},
"study": {
"data": {
- "id": "40",
+ "id": "124",
"type": "studies"
}
},
"data_files": {
"data": [
{
- "id": "13",
+ "id": "53",
"type": "data_files"
}
]
},
+ "samples": {
+ "data": [
+ {
+ "id": "33",
+ "type": "samples"
+ }
+ ]
+ },
"models": {
"data": [
@@ -125,7 +133,7 @@
"sops": {
"data": [
{
- "id": "17",
+ "id": "75",
"type": "sops"
}
]
@@ -133,7 +141,7 @@
"publications": {
"data": [
{
- "id": "19",
+ "id": "41",
"type": "publications"
}
]
@@ -146,21 +154,21 @@
"documents": {
"data": [
{
- "id": "27",
+ "id": "98",
"type": "documents"
}
]
}
},
"links": {
- "self": "/assays/38"
+ "self": "/assays/96"
},
"meta": {
- "created": "2022-06-07T14:13:05.000Z",
- "modified": "2022-06-07T14:13:05.000Z",
+ "created": "2024-06-20T12:31:26.000Z",
+ "modified": "2024-06-20T12:31:26.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "df811940-c899-013a-0f7e-0a81884ed284"
+ "uuid": "ef4bb210-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/assayResponse.json b/public/api/examples/assayResponse.json
index e9d4c60663..3630ca5fd6 100644
--- a/public/api/examples/assayResponse.json
+++ b/public/api/examples/assayResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "51",
+ "id": "111",
"type": "assays",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "20",
+ "id": "45",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -41,7 +41,7 @@
],
"creators": [
{
- "profile": "/people/326",
+ "profile": "/people/949",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -53,7 +53,7 @@
"creators": {
"data": [
{
- "id": "326",
+ "id": "949",
"type": "people"
}
]
@@ -61,7 +61,7 @@
"submitter": {
"data": [
{
- "id": "315",
+ "id": "935",
"type": "people"
}
]
@@ -69,7 +69,7 @@
"organisms": {
"data": [
{
- "id": "12",
+ "id": "63",
"type": "organisms"
}
]
@@ -82,11 +82,11 @@
"people": {
"data": [
{
- "id": "315",
+ "id": "935",
"type": "people"
},
{
- "id": "326",
+ "id": "949",
"type": "people"
}
]
@@ -94,35 +94,43 @@
"projects": {
"data": [
{
- "id": "329",
+ "id": "1098",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "57",
+ "id": "150",
"type": "investigations"
}
},
"study": {
"data": {
- "id": "55",
+ "id": "141",
"type": "studies"
}
},
"data_files": {
"data": [
{
- "id": "17",
+ "id": "57",
"type": "data_files"
}
]
},
+ "samples": {
+ "data": [
+ {
+ "id": "37",
+ "type": "samples"
+ }
+ ]
+ },
"models": {
"data": [
{
- "id": "41",
+ "id": "45",
"type": "models"
}
]
@@ -130,7 +138,7 @@
"sops": {
"data": [
{
- "id": "21",
+ "id": "79",
"type": "sops"
}
]
@@ -138,7 +146,7 @@
"publications": {
"data": [
{
- "id": "23",
+ "id": "45",
"type": "publications"
}
]
@@ -151,21 +159,21 @@
"documents": {
"data": [
{
- "id": "31",
+ "id": "102",
"type": "documents"
}
]
}
},
"links": {
- "self": "/assays/51"
+ "self": "/assays/111"
},
"meta": {
- "created": "2022-06-07T14:13:12.000Z",
- "modified": "2022-06-07T14:13:12.000Z",
+ "created": "2024-06-20T12:31:33.000Z",
+ "modified": "2024-06-20T12:31:33.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "e37d2a60-c899-013a-0f7e-0a81884ed284"
+ "uuid": "f3ebed40-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/collectionItemPatch.json b/public/api/examples/collectionItemPatch.json
index bef43c7614..845fa6a37d 100644
--- a/public/api/examples/collectionItemPatch.json
+++ b/public/api/examples/collectionItemPatch.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "20",
+ "id": "33",
"type": "collection_items",
"attributes": {
"comment": "A fine addition to the collection indeed!!!",
@@ -9,7 +9,7 @@
"relationships": {
"asset": {
"data": {
- "id": "53",
+ "id": "50",
"type": "sops"
}
}
diff --git a/public/api/examples/collectionItemPatchResponse.json b/public/api/examples/collectionItemPatchResponse.json
index 8c7dd92180..9b8d221c0f 100644
--- a/public/api/examples/collectionItemPatchResponse.json
+++ b/public/api/examples/collectionItemPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "20",
+ "id": "33",
"type": "collection_items",
"attributes": {
"comment": "A fine addition to the collection indeed!!!",
@@ -9,13 +9,13 @@
"relationships": {
"collection": {
"data": {
- "id": "15",
+ "id": "41",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "53",
+ "id": "50",
"type": "sops"
},
"meta": {
@@ -24,11 +24,11 @@
}
},
"links": {
- "self": "/collections/15/items/20"
+ "self": "/collections/41/items/33"
},
"meta": {
- "created": "2022-06-07T14:14:29.000Z",
- "modified": "2022-06-07T14:14:29.000Z",
+ "created": "2024-06-20T12:30:50.000Z",
+ "modified": "2024-06-20T12:30:50.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/collectionItemPost.json b/public/api/examples/collectionItemPost.json
index a129761c6c..83c02a7644 100644
--- a/public/api/examples/collectionItemPost.json
+++ b/public/api/examples/collectionItemPost.json
@@ -8,7 +8,7 @@
"relationships": {
"asset": {
"data": {
- "id": "50",
+ "id": "47",
"type": "sops"
}
}
diff --git a/public/api/examples/collectionItemPostResponse.json b/public/api/examples/collectionItemPostResponse.json
index 1bb374a938..37e89fbe48 100644
--- a/public/api/examples/collectionItemPostResponse.json
+++ b/public/api/examples/collectionItemPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "14",
+ "id": "27",
"type": "collection_items",
"attributes": {
"comment": "A fine addition to the collection indeed",
@@ -9,13 +9,13 @@
"relationships": {
"collection": {
"data": {
- "id": "9",
+ "id": "35",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "50",
+ "id": "47",
"type": "sops"
},
"meta": {
@@ -24,11 +24,11 @@
}
},
"links": {
- "self": "/collections/9/items/14"
+ "self": "/collections/35/items/27"
},
"meta": {
- "created": "2022-06-07T14:14:27.000Z",
- "modified": "2022-06-07T14:14:27.000Z",
+ "created": "2024-06-20T12:30:48.000Z",
+ "modified": "2024-06-20T12:30:48.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/collectionItemResponse.json b/public/api/examples/collectionItemResponse.json
index b1b2b74a5b..b3e80b4ea4 100644
--- a/public/api/examples/collectionItemResponse.json
+++ b/public/api/examples/collectionItemResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "19",
+ "id": "32",
"type": "collection_items",
"attributes": {
"comment": "A document",
@@ -9,13 +9,13 @@
"relationships": {
"collection": {
"data": {
- "id": "14",
+ "id": "40",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "65",
+ "id": "71",
"type": "documents"
},
"meta": {
@@ -24,11 +24,11 @@
}
},
"links": {
- "self": "/collections/14/items/19"
+ "self": "/collections/40/items/32"
},
"meta": {
- "created": "2022-06-07T14:14:29.000Z",
- "modified": "2022-06-07T14:14:29.000Z",
+ "created": "2024-06-20T12:30:49.000Z",
+ "modified": "2024-06-20T12:30:49.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/collectionItemsResponse.json b/public/api/examples/collectionItemsResponse.json
index 1102918a63..c17c177333 100644
--- a/public/api/examples/collectionItemsResponse.json
+++ b/public/api/examples/collectionItemsResponse.json
@@ -6,7 +6,7 @@
"version": "1.0"
},
"links": {
- "self": "/collections/10/items"
+ "self": "/collections/36/items"
},
"meta": {
"base_url": "http://localhost:3000",
diff --git a/public/api/examples/collectionPatch.json b/public/api/examples/collectionPatch.json
index a2fc8b0a26..d1d57b7b5d 100644
--- a/public/api/examples/collectionPatch.json
+++ b/public/api/examples/collectionPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "collections",
- "id": "8",
+ "id": "99",
"attributes": {
"title": "A Maximally Patched Collection",
"description": "A collection of very interesting things",
@@ -17,7 +17,7 @@
"permissions": [
{
"resource": {
- "id": "36",
+ "id": "1022251137",
"type": "projects"
},
"access": "edit"
@@ -29,7 +29,7 @@
"creators": {
"data": [
{
- "id": "35",
+ "id": "1039987079",
"type": "people"
}
]
@@ -37,7 +37,7 @@
"projects": {
"data": [
{
- "id": "36",
+ "id": "1022251137",
"type": "projects"
}
]
diff --git a/public/api/examples/collectionPatchResponse.json b/public/api/examples/collectionPatchResponse.json
index 6fb7cf131d..dc32c5fdb5 100644
--- a/public/api/examples/collectionPatchResponse.json
+++ b/public/api/examples/collectionPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "8",
+ "id": "99",
"type": "collections",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "36",
+ "id": "1022251137",
"type": "projects"
},
"access": "edit"
@@ -26,14 +26,14 @@
"tag2",
"tag3"
],
- "created_at": "2022-06-07T14:12:25.000Z",
- "updated_at": "2022-06-07T14:12:25.000Z",
+ "created_at": "2024-06-20T12:35:48.000Z",
+ "updated_at": "2024-06-20T12:35:48.000Z",
"creators": [
{
- "profile": "/people/35",
+ "profile": "/people/1039987079",
"family_name": "Last",
- "given_name": "Person29",
- "affiliation": "An Institution: 35",
+ "given_name": "Person2213",
+ "affiliation": "An Institution: 2720",
"orcid": null
}
],
@@ -43,7 +43,7 @@
"creators": {
"data": [
{
- "id": "35",
+ "id": "1039987079",
"type": "people"
}
]
@@ -51,7 +51,7 @@
"submitter": {
"data": [
{
- "id": "34",
+ "id": "1039987078",
"type": "people"
}
]
@@ -59,11 +59,11 @@
"people": {
"data": [
{
- "id": "34",
+ "id": "1039987078",
"type": "people"
},
{
- "id": "35",
+ "id": "1039987079",
"type": "people"
}
]
@@ -71,7 +71,7 @@
"projects": {
"data": [
{
- "id": "36",
+ "id": "1022251137",
"type": "projects"
}
]
@@ -88,15 +88,15 @@
}
},
"links": {
- "self": "/collections/8",
- "items": "/collections/8/items"
+ "self": "/collections/99",
+ "items": "/collections/99/items"
},
"meta": {
- "created": "2022-06-07T14:12:25.000Z",
- "modified": "2022-06-07T14:12:25.000Z",
+ "created": "2024-06-20T12:35:48.000Z",
+ "modified": "2024-06-20T12:35:48.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "c79a7a60-c899-013a-0f7e-0a81884ed284"
+ "uuid": "8b7d87d0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/collectionPost.json b/public/api/examples/collectionPost.json
index 11b1bf5ed8..ed55d2b4c2 100644
--- a/public/api/examples/collectionPost.json
+++ b/public/api/examples/collectionPost.json
@@ -15,7 +15,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022251103",
"type": "projects"
},
"access": "edit"
@@ -27,7 +27,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039987047",
"type": "people"
}
]
@@ -35,7 +35,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022251103",
"type": "projects"
}
]
diff --git a/public/api/examples/collectionPostResponse.json b/public/api/examples/collectionPostResponse.json
index 0deeccff3a..f73ba93a54 100644
--- a/public/api/examples/collectionPostResponse.json
+++ b/public/api/examples/collectionPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "2",
+ "id": "93",
"type": "collections",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022251103",
"type": "projects"
},
"access": "edit"
@@ -25,14 +25,14 @@
"tag1",
"tag2"
],
- "created_at": "2022-06-07T14:12:20.000Z",
- "updated_at": "2022-06-07T14:12:20.000Z",
+ "created_at": "2024-06-20T12:35:44.000Z",
+ "updated_at": "2024-06-20T12:35:43.000Z",
"creators": [
{
- "profile": "/people/3",
+ "profile": "/people/1039987047",
"family_name": "Last",
- "given_name": "Person2",
- "affiliation": "An Institution: 3",
+ "given_name": "Person2186",
+ "affiliation": "An Institution: 2688",
"orcid": null
}
],
@@ -42,7 +42,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039987047",
"type": "people"
}
]
@@ -50,7 +50,7 @@
"submitter": {
"data": [
{
- "id": "2",
+ "id": "1039987046",
"type": "people"
}
]
@@ -58,11 +58,11 @@
"people": {
"data": [
{
- "id": "2",
+ "id": "1039987046",
"type": "people"
},
{
- "id": "3",
+ "id": "1039987047",
"type": "people"
}
]
@@ -70,7 +70,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022251103",
"type": "projects"
}
]
@@ -87,15 +87,15 @@
}
},
"links": {
- "self": "/collections/2",
- "items": "/collections/2/items"
+ "self": "/collections/93",
+ "items": "/collections/93/items"
},
"meta": {
- "created": "2022-06-07T14:12:20.000Z",
- "modified": "2022-06-07T14:12:20.000Z",
+ "created": "2024-06-20T12:35:44.000Z",
+ "modified": "2024-06-20T12:35:43.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "c4b5aef0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "89110560-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/collectionResponse.json b/public/api/examples/collectionResponse.json
index bbe1695446..e5dcfabfdc 100644
--- a/public/api/examples/collectionResponse.json
+++ b/public/api/examples/collectionResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "7",
+ "id": "98",
"type": "collections",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "2",
+ "id": "175",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -26,11 +26,11 @@
"Collection-tag4",
"Collection-tag5"
],
- "created_at": "2022-06-07T14:12:23.000Z",
- "updated_at": "2022-06-07T14:12:24.000Z",
+ "created_at": "2024-06-20T12:35:46.000Z",
+ "updated_at": "2024-06-20T12:35:47.000Z",
"creators": [
{
- "profile": "/people/25",
+ "profile": "/people/1039987069",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -43,7 +43,7 @@
"creators": {
"data": [
{
- "id": "25",
+ "id": "1039987069",
"type": "people"
}
]
@@ -51,7 +51,7 @@
"submitter": {
"data": [
{
- "id": "26",
+ "id": "1039987070",
"type": "people"
}
]
@@ -59,11 +59,11 @@
"people": {
"data": [
{
- "id": "25",
+ "id": "1039987069",
"type": "people"
},
{
- "id": "26",
+ "id": "1039987070",
"type": "people"
}
]
@@ -71,7 +71,7 @@
"projects": {
"data": [
{
- "id": "28",
+ "id": "1022251129",
"type": "projects"
}
]
@@ -79,7 +79,7 @@
"publications": {
"data": [
{
- "id": "2",
+ "id": "195",
"type": "publications"
}
]
@@ -87,47 +87,47 @@
"items": {
"data": [
{
- "id": "7",
+ "id": "52",
"type": "collection_items"
},
{
- "id": "8",
+ "id": "53",
"type": "collection_items"
},
{
- "id": "9",
+ "id": "54",
"type": "collection_items"
},
{
- "id": "10",
+ "id": "55",
"type": "collection_items"
},
{
- "id": "11",
+ "id": "56",
"type": "collection_items"
},
{
- "id": "12",
+ "id": "57",
"type": "collection_items"
}
]
}
},
"links": {
- "self": "/collections/7",
- "items": "/collections/7/items"
+ "self": "/collections/98",
+ "items": "/collections/98/items"
},
"meta": {
- "created": "2022-06-07T14:12:23.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:46.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "c6ba22b0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "8ab16a00-112f-013d-1f9d-0a81884ed284"
}
},
"included": [
{
- "id": "7",
+ "id": "52",
"type": "collection_items",
"attributes": {
"comment": "Readme!",
@@ -136,13 +136,13 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "9",
+ "id": "222",
"type": "documents"
},
"meta": {
@@ -151,17 +151,17 @@
}
},
"links": {
- "self": "/collections/7/items/7"
+ "self": "/collections/98/items/52"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:46.000Z",
+ "modified": "2024-06-20T12:35:46.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
},
{
- "id": "8",
+ "id": "53",
"type": "collection_items",
"attributes": {
"comment": "Secret info",
@@ -170,23 +170,23 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
}
},
"links": {
- "self": "/collections/7/items/8"
+ "self": "/collections/98/items/53"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:47.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
},
{
- "id": "9",
+ "id": "54",
"type": "collection_items",
"attributes": {
"comment": "The protocol",
@@ -195,13 +195,13 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "2",
+ "id": "1055250447",
"type": "sops"
},
"meta": {
@@ -210,17 +210,17 @@
}
},
"links": {
- "self": "/collections/7/items/9"
+ "self": "/collections/98/items/54"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:47.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
},
{
- "id": "10",
+ "id": "55",
"type": "collection_items",
"attributes": {
"comment": "Data 1",
@@ -229,13 +229,13 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "4",
+ "id": "883654321",
"type": "data_files"
},
"meta": {
@@ -244,17 +244,17 @@
}
},
"links": {
- "self": "/collections/7/items/10"
+ "self": "/collections/98/items/55"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:47.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
},
{
- "id": "11",
+ "id": "56",
"type": "collection_items",
"attributes": {
"comment": "Data 2",
@@ -263,13 +263,13 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
},
"asset": {
"data": {
- "id": "5",
+ "id": "883654322",
"type": "data_files"
},
"meta": {
@@ -278,17 +278,17 @@
}
},
"links": {
- "self": "/collections/7/items/11"
+ "self": "/collections/98/items/56"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:47.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
},
{
- "id": "12",
+ "id": "57",
"type": "collection_items",
"attributes": {
"comment": "Bad data",
@@ -297,17 +297,17 @@
"relationships": {
"collection": {
"data": {
- "id": "7",
+ "id": "98",
"type": "collections"
}
}
},
"links": {
- "self": "/collections/7/items/12"
+ "self": "/collections/98/items/57"
},
"meta": {
- "created": "2022-06-07T14:12:24.000Z",
- "modified": "2022-06-07T14:12:24.000Z",
+ "created": "2024-06-20T12:35:47.000Z",
+ "modified": "2024-06-20T12:35:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/collectionsResponse.json b/public/api/examples/collectionsResponse.json
index fe3130f636..4a8a9ec210 100644
--- a/public/api/examples/collectionsResponse.json
+++ b/public/api/examples/collectionsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "5",
+ "id": "96",
"type": "collections",
"attributes": {
"title": "A Maximal Collection"
},
"links": {
- "self": "/collections/5"
+ "self": "/collections/96"
}
},
{
- "id": "4",
+ "id": "95",
"type": "collections",
"attributes": {
"title": "A Minimal Collection"
},
"links": {
- "self": "/collections/4"
+ "self": "/collections/95"
}
}
],
diff --git a/public/api/examples/contentBlobResponse.json b/public/api/examples/contentBlobResponse.json
index 4a2a2d5c33..12930d2eec 100644
--- a/public/api/examples/contentBlobResponse.json
+++ b/public/api/examples/contentBlobResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "316",
+ "id": "1050453050",
"type": "content_blobs",
"attributes": {
"original_filename": "min file",
@@ -13,21 +13,21 @@
"relationships": {
"asset": {
"data": {
- "id": "45",
+ "id": "1055250487",
"type": "sops"
}
}
},
"links": {
- "self": "/sops/45/content_blobs/316",
- "download": "/sops/45/content_blobs/316/download"
+ "self": "/sops/1055250487/content_blobs/1050453050",
+ "download": "/sops/1055250487/content_blobs/1050453050/download"
},
"meta": {
- "created": "2022-06-07T14:14:09.000Z",
- "modified": "2022-06-07T14:14:09.000Z",
+ "created": "2024-06-20T12:38:35.000Z",
+ "modified": "2024-06-20T12:38:35.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "05bf37b0-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "ef445e70-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/dataFilePatch.json b/public/api/examples/dataFilePatch.json
index c90f8242ec..23f645ef1f 100644
--- a/public/api/examples/dataFilePatch.json
+++ b/public/api/examples/dataFilePatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "data_files",
- "id": "1",
+ "id": "883654311",
"attributes": {
"title": "A Maximally Patched Data File",
"description": "Study of the Human Genome",
@@ -29,7 +29,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022251011",
"type": "projects"
},
"access": "edit"
@@ -41,7 +41,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039986955",
"type": "people"
}
]
@@ -49,7 +49,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022251011",
"type": "projects"
}
]
@@ -57,7 +57,7 @@
"assays": {
"data": [
{
- "id": "1",
+ "id": "1035386688",
"type": "assays"
}
]
@@ -65,7 +65,7 @@
"publications": {
"data": [
{
- "id": "1",
+ "id": "191",
"type": "publications"
}
]
@@ -73,7 +73,7 @@
"events": {
"data": [
{
- "id": "1",
+ "id": "1025618717",
"type": "events"
}
]
@@ -81,7 +81,7 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "133",
"type": "workflows"
}
]
diff --git a/public/api/examples/dataFilePatchResponse.json b/public/api/examples/dataFilePatchResponse.json
index 8b92aa5350..431a0b809f 100644
--- a/public/api/examples/dataFilePatchResponse.json
+++ b/public/api/examples/dataFilePatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "1",
+ "id": "883654311",
"type": "data_files",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022251011",
"type": "projects"
},
"access": "edit"
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/data_files/1?version=1",
+ "url": "http://localhost:3000/data_files/883654311?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-03-07T10:50:32.823Z",
- "updated_at": "2023-03-07T10:50:33.024Z",
+ "created_at": "2024-06-20T12:35:31.000Z",
+ "updated_at": "2024-06-20T12:35:31.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,16 +47,16 @@
"md5sum": "565ae8a7a743c3bfd9f15c69647f5b8b",
"sha1sum": "b9d2148740050b7f37975edd0fb97faa508ff767",
"content_type": "application/pdf",
- "link": "http://localhost:3000/data_files/1/content_blobs/1",
+ "link": "http://localhost:3000/data_files/883654311/content_blobs/1050452689",
"size": 8827
}
],
"creators": [
{
- "profile": "/people/3",
+ "profile": "/people/1039986955",
"family_name": "Last",
- "given_name": "Person185",
- "affiliation": "An Institution: 218",
+ "given_name": "Person2117",
+ "affiliation": "An Institution: 2596",
"orcid": null
}
],
@@ -78,7 +78,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039986955",
"type": "people"
}
]
@@ -86,7 +86,7 @@
"submitter": {
"data": [
{
- "id": "2",
+ "id": "1039986954",
"type": "people"
}
]
@@ -94,11 +94,11 @@
"people": {
"data": [
{
- "id": "2",
+ "id": "1039986954",
"type": "people"
},
{
- "id": "3",
+ "id": "1039986955",
"type": "people"
}
]
@@ -106,7 +106,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022251011",
"type": "projects"
}
]
@@ -114,7 +114,7 @@
"investigations": {
"data": [
{
- "id": "1",
+ "id": "973654842",
"type": "investigations"
}
]
@@ -122,7 +122,7 @@
"studies": {
"data": [
{
- "id": "1",
+ "id": "1060384900",
"type": "studies"
}
]
@@ -130,7 +130,7 @@
"assays": {
"data": [
{
- "id": "1",
+ "id": "1035386688",
"type": "assays"
}
]
@@ -138,7 +138,7 @@
"publications": {
"data": [
{
- "id": "1",
+ "id": "191",
"type": "publications"
}
]
@@ -146,7 +146,7 @@
"events": {
"data": [
{
- "id": "1",
+ "id": "1025618717",
"type": "events"
}
]
@@ -154,7 +154,7 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "133",
"type": "workflows"
}
]
@@ -167,14 +167,14 @@
}
},
"links": {
- "self": "/data_files/1?version=1"
+ "self": "/data_files/883654311?version=1"
},
"meta": {
- "created": "2023-03-07T10:50:32.812Z",
- "modified": "2023-03-07T10:50:33.002Z",
+ "created": "2024-06-20T12:35:31.000Z",
+ "modified": "2024-06-20T12:35:31.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "cebc2810-9f03-013b-15cf-0a81884ed284"
+ "uuid": "819648d0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/dataFilePost.json b/public/api/examples/dataFilePost.json
index 5be85c6e5c..1540713c63 100644
--- a/public/api/examples/dataFilePost.json
+++ b/public/api/examples/dataFilePost.json
@@ -33,7 +33,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022250976",
"type": "projects"
},
"access": "edit"
@@ -45,7 +45,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039986916",
"type": "people"
}
]
@@ -53,7 +53,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022250976",
"type": "projects"
}
]
@@ -61,7 +61,7 @@
"assays": {
"data": [
{
- "id": "1",
+ "id": "1035386683",
"type": "assays"
}
]
@@ -69,7 +69,7 @@
"publications": {
"data": [
{
- "id": "1",
+ "id": "186",
"type": "publications"
}
]
@@ -77,7 +77,7 @@
"events": {
"data": [
{
- "id": "1",
+ "id": "1025618712",
"type": "events"
}
]
@@ -85,7 +85,7 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "128",
"type": "workflows"
}
]
diff --git a/public/api/examples/dataFilePostResponse.json b/public/api/examples/dataFilePostResponse.json
index 94f2b99904..885ac77908 100644
--- a/public/api/examples/dataFilePostResponse.json
+++ b/public/api/examples/dataFilePostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "2",
+ "id": "883654305",
"type": "data_files",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "2",
+ "id": "1022250976",
"type": "projects"
},
"access": "edit"
@@ -30,14 +30,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/data_files/2?version=1",
+ "url": "http://localhost:3000/data_files/883654305?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-03-07T10:50:29.057Z",
- "updated_at": "2023-03-07T10:50:29.057Z",
+ "created_at": "2024-06-20T12:35:26.000Z",
+ "updated_at": "2024-06-20T12:35:26.000Z",
"doi": null,
"content_blobs": [
{
@@ -46,16 +46,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/data_files/2/content_blobs/3",
+ "link": "http://localhost:3000/data_files/883654305/content_blobs/1050452679",
"size": null
}
],
"creators": [
{
- "profile": "/people/3",
+ "profile": "/people/1039986916",
"family_name": "Last",
- "given_name": "Person151",
- "affiliation": "An Institution: 179",
+ "given_name": "Person2083",
+ "affiliation": "An Institution: 2557",
"orcid": null
}
],
@@ -77,7 +77,7 @@
"creators": {
"data": [
{
- "id": "3",
+ "id": "1039986916",
"type": "people"
}
]
@@ -85,7 +85,7 @@
"submitter": {
"data": [
{
- "id": "2",
+ "id": "1039986915",
"type": "people"
}
]
@@ -93,11 +93,11 @@
"people": {
"data": [
{
- "id": "2",
+ "id": "1039986915",
"type": "people"
},
{
- "id": "3",
+ "id": "1039986916",
"type": "people"
}
]
@@ -105,7 +105,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022250976",
"type": "projects"
}
]
@@ -113,7 +113,7 @@
"investigations": {
"data": [
{
- "id": "1",
+ "id": "973654837",
"type": "investigations"
}
]
@@ -121,7 +121,7 @@
"studies": {
"data": [
{
- "id": "1",
+ "id": "1060384895",
"type": "studies"
}
]
@@ -129,7 +129,7 @@
"assays": {
"data": [
{
- "id": "1",
+ "id": "1035386683",
"type": "assays"
}
]
@@ -137,7 +137,7 @@
"publications": {
"data": [
{
- "id": "1",
+ "id": "186",
"type": "publications"
}
]
@@ -145,7 +145,7 @@
"events": {
"data": [
{
- "id": "1",
+ "id": "1025618712",
"type": "events"
}
]
@@ -153,7 +153,7 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "128",
"type": "workflows"
}
]
@@ -166,14 +166,14 @@
}
},
"links": {
- "self": "/data_files/2?version=1"
+ "self": "/data_files/883654305?version=1"
},
"meta": {
- "created": "2023-03-07T10:50:29.027Z",
- "modified": "2023-03-07T10:50:29.057Z",
+ "created": "2024-06-20T12:35:26.000Z",
+ "modified": "2024-06-20T12:35:26.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "cc778f60-9f03-013b-15cf-0a81884ed284"
+ "uuid": "7ed41350-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/dataFileResponse.json b/public/api/examples/dataFileResponse.json
index 8531b83576..6e9033dddf 100644
--- a/public/api/examples/dataFileResponse.json
+++ b/public/api/examples/dataFileResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "2",
+ "id": "883654310",
"type": "data_files",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "1",
+ "id": "171",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/data_files/2?version=1",
+ "url": "http://localhost:3000/data_files/883654310?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-03-07T10:50:32.170Z",
- "updated_at": "2023-03-07T10:50:32.170Z",
+ "created_at": "2024-06-20T12:35:30.000Z",
+ "updated_at": "2024-06-20T12:35:30.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,13 +47,13 @@
"md5sum": "565ae8a7a743c3bfd9f15c69647f5b8b",
"sha1sum": "b9d2148740050b7f37975edd0fb97faa508ff767",
"content_type": "application/pdf",
- "link": "http://localhost:3000/data_files/2/content_blobs/5",
+ "link": "http://localhost:3000/data_files/883654310/content_blobs/1050452688",
"size": 8827
}
],
"creators": [
{
- "profile": "/people/15",
+ "profile": "/people/1039986951",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -78,7 +78,7 @@
"creators": {
"data": [
{
- "id": "15",
+ "id": "1039986951",
"type": "people"
}
]
@@ -86,7 +86,7 @@
"submitter": {
"data": [
{
- "id": "16",
+ "id": "1039986952",
"type": "people"
}
]
@@ -94,11 +94,11 @@
"people": {
"data": [
{
- "id": "15",
+ "id": "1039986951",
"type": "people"
},
{
- "id": "16",
+ "id": "1039986952",
"type": "people"
}
]
@@ -106,7 +106,7 @@
"projects": {
"data": [
{
- "id": "15",
+ "id": "1022251009",
"type": "projects"
}
]
@@ -114,7 +114,7 @@
"investigations": {
"data": [
{
- "id": "2",
+ "id": "973654841",
"type": "investigations"
}
]
@@ -122,7 +122,7 @@
"studies": {
"data": [
{
- "id": "2",
+ "id": "1060384899",
"type": "studies"
}
]
@@ -130,7 +130,7 @@
"assays": {
"data": [
{
- "id": "2",
+ "id": "1035386687",
"type": "assays"
}
]
@@ -138,7 +138,7 @@
"publications": {
"data": [
{
- "id": "2",
+ "id": "190",
"type": "publications"
}
]
@@ -146,7 +146,7 @@
"events": {
"data": [
{
- "id": "2",
+ "id": "1025618716",
"type": "events"
}
]
@@ -154,7 +154,7 @@
"workflows": {
"data": [
{
- "id": "2",
+ "id": "132",
"type": "workflows"
}
]
@@ -167,14 +167,14 @@
}
},
"links": {
- "self": "/data_files/2?version=1"
+ "self": "/data_files/883654310?version=1"
},
"meta": {
- "created": "2023-03-07T10:50:32.132Z",
- "modified": "2023-03-07T10:50:32.170Z",
+ "created": "2024-06-20T12:35:30.000Z",
+ "modified": "2024-06-20T12:35:30.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "ce53a460-9f03-013b-15cf-0a81884ed284"
+ "uuid": "811359c0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/documentPatch.json b/public/api/examples/documentPatch.json
index 411c682591..3d79206d1d 100644
--- a/public/api/examples/documentPatch.json
+++ b/public/api/examples/documentPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "documents",
- "id": "642",
+ "id": "308",
"attributes": {
"title": "A Maximally Patched Document",
"description": "A report about the thing that happened",
@@ -17,7 +17,7 @@
"permissions": [
{
"resource": {
- "id": "16398",
+ "id": "1022252726",
"type": "projects"
},
"access": "edit"
@@ -25,7 +25,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "3021",
+ "extended_metadata_type_id": "401",
"attribute_map": {
"role_email": "alice@email.com",
"role_phone": "0012345",
@@ -44,7 +44,7 @@
"creators": {
"data": [
{
- "id": "13852",
+ "id": "1039988618",
"type": "people"
}
]
@@ -52,7 +52,7 @@
"projects": {
"data": [
{
- "id": "16398",
+ "id": "1022252726",
"type": "projects"
}
]
@@ -60,7 +60,7 @@
"assays": {
"data": [
{
- "id": "1905",
+ "id": "1035386915",
"type": "assays"
}
]
@@ -68,7 +68,7 @@
"workflows": {
"data": [
{
- "id": "339",
+ "id": "225",
"type": "workflows"
}
]
diff --git a/public/api/examples/documentPatchResponse.json b/public/api/examples/documentPatchResponse.json
index e624d6f62b..754b264e16 100644
--- a/public/api/examples/documentPatchResponse.json
+++ b/public/api/examples/documentPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "642",
+ "id": "308",
"type": "documents",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "16398",
+ "id": "1022252726",
"type": "projects"
},
"access": "edit"
@@ -19,7 +19,7 @@
],
"extended_attributes": {
- "extended_metadata_type_id": "3021",
+ "extended_metadata_type_id": "401",
"attribute_map": {
"role_email": "alice@email.com",
"role_phone": "0012345",
@@ -46,32 +46,32 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/documents/642?version=1",
+ "url": "http://localhost:3000/documents/308?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2024-03-15T16:09:58.000Z",
- "updated_at": "2024-03-15T16:09:58.000Z",
+ "created_at": "2024-06-20T12:39:26.000Z",
+ "updated_at": "2024-06-20T12:39:26.000Z",
"doi": null,
"content_blobs": [
{
- "original_filename": "file-22",
+ "original_filename": "file-332",
"url": null,
- "md5sum": "28219bc7b5e57f29a560e813a8a19f2d",
- "sha1sum": "d210301cad1b23eeecc304180c62047468a78445",
+ "md5sum": "cfd0a2fa5d67073a2046c0bfe42fb68f",
+ "sha1sum": "e40baba579e6063e7f2bec398e5657a23a421fdb",
"content_type": "application/pdf",
- "link": "http://localhost:3000/documents/642/content_blobs/2825",
- "size": 9
+ "link": "http://localhost:3000/documents/308/content_blobs/1050453213",
+ "size": 10
}
],
"creators": [
{
- "profile": "/people/13852",
+ "profile": "/people/1039988618",
"family_name": "Last",
- "given_name": "Person82",
- "affiliation": "An Institution: 108",
+ "given_name": "Person3431",
+ "affiliation": "An Institution: 4272",
"orcid": null
}
],
@@ -81,7 +81,7 @@
"creators": {
"data": [
{
- "id": "13852",
+ "id": "1039988618",
"type": "people"
}
]
@@ -89,7 +89,7 @@
"submitter": {
"data": [
{
- "id": "13851",
+ "id": "1039988617",
"type": "people"
}
]
@@ -97,11 +97,11 @@
"people": {
"data": [
{
- "id": "13851",
+ "id": "1039988617",
"type": "people"
},
{
- "id": "13852",
+ "id": "1039988618",
"type": "people"
}
]
@@ -109,7 +109,7 @@
"projects": {
"data": [
{
- "id": "16398",
+ "id": "1022252726",
"type": "projects"
}
]
@@ -117,7 +117,7 @@
"investigations": {
"data": [
{
- "id": "4748",
+ "id": "973655139",
"type": "investigations"
}
]
@@ -125,7 +125,7 @@
"studies": {
"data": [
{
- "id": "3623",
+ "id": "1060385170",
"type": "studies"
}
]
@@ -133,7 +133,7 @@
"assays": {
"data": [
{
- "id": "1905",
+ "id": "1035386915",
"type": "assays"
}
]
@@ -146,21 +146,21 @@
"workflows": {
"data": [
{
- "id": "339",
+ "id": "225",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/documents/642?version=1"
+ "self": "/documents/308?version=1"
},
"meta": {
- "created": "2024-03-15T16:09:58.000Z",
- "modified": "2024-03-15T16:09:58.000Z",
+ "created": "2024-06-20T12:39:26.000Z",
+ "modified": "2024-06-20T12:39:26.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "650f9950-c514-013c-6432-7efdca78d793"
+ "uuid": "0dd88500-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/documentPost.json b/public/api/examples/documentPost.json
index f7ffc6b21d..d23abf3e73 100644
--- a/public/api/examples/documentPost.json
+++ b/public/api/examples/documentPost.json
@@ -21,7 +21,7 @@
"permissions": [
{
"resource": {
- "id": "16368",
+ "id": "1022252696",
"type": "projects"
},
"access": "edit"
@@ -29,7 +29,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "3006",
+ "extended_metadata_type_id": "386",
"attribute_map": {
"role_email": "alice@email.com",
"role_phone": "0012345",
@@ -48,7 +48,7 @@
"creators": {
"data": [
{
- "id": "13824",
+ "id": "1039988590",
"type": "people"
}
]
@@ -56,7 +56,7 @@
"projects": {
"data": [
{
- "id": "16368",
+ "id": "1022252696",
"type": "projects"
}
]
@@ -64,7 +64,7 @@
"assays": {
"data": [
{
- "id": "1900",
+ "id": "1035386910",
"type": "assays"
}
]
@@ -72,7 +72,7 @@
"workflows": {
"data": [
{
- "id": "334",
+ "id": "220",
"type": "workflows"
}
]
diff --git a/public/api/examples/documentPostResponse.json b/public/api/examples/documentPostResponse.json
index 6206867a8f..b29a029c4c 100644
--- a/public/api/examples/documentPostResponse.json
+++ b/public/api/examples/documentPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "636",
+ "id": "302",
"type": "documents",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "16368",
+ "id": "1022252696",
"type": "projects"
},
"access": "edit"
@@ -19,7 +19,7 @@
],
"extended_attributes": {
- "extended_metadata_type_id": "3006",
+ "extended_metadata_type_id": "386",
"attribute_map": {
"role_email": "alice@email.com",
"role_phone": "0012345",
@@ -45,14 +45,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/documents/636?version=1",
+ "url": "http://localhost:3000/documents/302?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2024-03-15T16:09:56.000Z",
- "updated_at": "2024-03-15T16:09:56.000Z",
+ "created_at": "2024-06-20T12:39:23.000Z",
+ "updated_at": "2024-06-20T12:39:23.000Z",
"doi": null,
"content_blobs": [
{
@@ -61,16 +61,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/documents/636/content_blobs/2814",
+ "link": "http://localhost:3000/documents/302/content_blobs/1050453202",
"size": null
}
],
"creators": [
{
- "profile": "/people/13824",
+ "profile": "/people/1039988590",
"family_name": "Last",
- "given_name": "Person59",
- "affiliation": "An Institution: 80",
+ "given_name": "Person3408",
+ "affiliation": "An Institution: 4244",
"orcid": null
}
],
@@ -80,7 +80,7 @@
"creators": {
"data": [
{
- "id": "13824",
+ "id": "1039988590",
"type": "people"
}
]
@@ -88,7 +88,7 @@
"submitter": {
"data": [
{
- "id": "13823",
+ "id": "1039988589",
"type": "people"
}
]
@@ -96,11 +96,11 @@
"people": {
"data": [
{
- "id": "13823",
+ "id": "1039988589",
"type": "people"
},
{
- "id": "13824",
+ "id": "1039988590",
"type": "people"
}
]
@@ -108,7 +108,7 @@
"projects": {
"data": [
{
- "id": "16368",
+ "id": "1022252696",
"type": "projects"
}
]
@@ -116,7 +116,7 @@
"investigations": {
"data": [
{
- "id": "4743",
+ "id": "973655134",
"type": "investigations"
}
]
@@ -124,7 +124,7 @@
"studies": {
"data": [
{
- "id": "3618",
+ "id": "1060385165",
"type": "studies"
}
]
@@ -132,7 +132,7 @@
"assays": {
"data": [
{
- "id": "1900",
+ "id": "1035386910",
"type": "assays"
}
]
@@ -145,21 +145,21 @@
"workflows": {
"data": [
{
- "id": "334",
+ "id": "220",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/documents/636?version=1"
+ "self": "/documents/302?version=1"
},
"meta": {
- "created": "2024-03-15T16:09:56.000Z",
- "modified": "2024-03-15T16:09:56.000Z",
+ "created": "2024-06-20T12:39:23.000Z",
+ "modified": "2024-06-20T12:39:23.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "63f3bb30-c514-013c-6432-7efdca78d793"
+ "uuid": "0ba000f0-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/documentResponse.json b/public/api/examples/documentResponse.json
index 52748d52c0..3d24399696 100644
--- a/public/api/examples/documentResponse.json
+++ b/public/api/examples/documentResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "641",
+ "id": "307",
"type": "documents",
"attributes": {
"policy": {
@@ -11,13 +11,13 @@
},
"discussion_links": [
{
- "id": "723",
+ "id": "244",
"label": "Slack",
"url": "http://www.slack.com/"
}
],
"extended_attributes": {
- "extended_metadata_type_id": "3018",
+ "extended_metadata_type_id": "398",
"attribute_map": {
"role_email": "alice@email.com",
"role_phone": "0012345",
@@ -46,14 +46,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/documents/641?version=1",
+ "url": "http://localhost:3000/documents/307?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2024-03-15T16:09:58.000Z",
- "updated_at": "2024-03-15T16:09:58.000Z",
+ "created_at": "2024-06-20T12:39:26.000Z",
+ "updated_at": "2024-06-20T12:39:26.000Z",
"doi": null,
"content_blobs": [
{
@@ -62,13 +62,13 @@
"md5sum": "726de0a3f94d65056b909b9736e10349",
"sha1sum": "fbcc0dee4b5415de4c82ef5b137d8231fec1331b",
"content_type": "application/pdf",
- "link": "http://localhost:3000/documents/641/content_blobs/2823",
+ "link": "http://localhost:3000/documents/307/content_blobs/1050453211",
"size": 8
}
],
"creators": [
{
- "profile": "/people/13848",
+ "profile": "/people/1039988614",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -81,7 +81,7 @@
"creators": {
"data": [
{
- "id": "13848",
+ "id": "1039988614",
"type": "people"
}
]
@@ -89,7 +89,7 @@
"submitter": {
"data": [
{
- "id": "13849",
+ "id": "1039988615",
"type": "people"
}
]
@@ -97,11 +97,11 @@
"people": {
"data": [
{
- "id": "13848",
+ "id": "1039988614",
"type": "people"
},
{
- "id": "13849",
+ "id": "1039988615",
"type": "people"
}
]
@@ -109,7 +109,7 @@
"projects": {
"data": [
{
- "id": "16396",
+ "id": "1022252724",
"type": "projects"
}
]
@@ -117,7 +117,7 @@
"investigations": {
"data": [
{
- "id": "4747",
+ "id": "973655138",
"type": "investigations"
}
]
@@ -125,7 +125,7 @@
"studies": {
"data": [
{
- "id": "3622",
+ "id": "1060385169",
"type": "studies"
}
]
@@ -133,7 +133,7 @@
"assays": {
"data": [
{
- "id": "1904",
+ "id": "1035386914",
"type": "assays"
}
]
@@ -141,7 +141,7 @@
"publications": {
"data": [
{
- "id": "1698",
+ "id": "334",
"type": "publications"
}
]
@@ -149,21 +149,21 @@
"workflows": {
"data": [
{
- "id": "338",
+ "id": "224",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/documents/641?version=1"
+ "self": "/documents/307?version=1"
},
"meta": {
- "created": "2024-03-15T16:09:58.000Z",
- "modified": "2024-03-15T16:09:58.000Z",
+ "created": "2024-06-20T12:39:26.000Z",
+ "modified": "2024-06-20T12:39:26.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "64ddb5c0-c514-013c-6432-7efdca78d793"
+ "uuid": "0d79a100-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/documentsResponse.json b/public/api/examples/documentsResponse.json
index b9f70b27e1..bb2131f583 100644
--- a/public/api/examples/documentsResponse.json
+++ b/public/api/examples/documentsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "638",
+ "id": "305",
"type": "documents",
"attributes": {
- "title": "A Minimal Document"
+ "title": "A Maximal Document"
},
"links": {
- "self": "/documents/638"
+ "self": "/documents/305"
}
},
{
- "id": "639",
+ "id": "304",
"type": "documents",
"attributes": {
- "title": "A Maximal Document"
+ "title": "A Minimal Document"
},
"links": {
- "self": "/documents/639"
+ "self": "/documents/304"
}
}
],
diff --git a/public/api/examples/eventPatch.json b/public/api/examples/eventPatch.json
index b2ebcc1dcb..5d8194a5b8 100644
--- a/public/api/examples/eventPatch.json
+++ b/public/api/examples/eventPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "events",
- "id": "20",
+ "id": "1025618785",
"attributes": {
"title": "A Maximally Patched Event",
"description": "A thing happening",
@@ -10,7 +10,7 @@
"permissions": [
{
"resource": {
- "id": "459",
+ "id": "1022252557",
"type": "projects"
},
"access": "edit"
@@ -28,7 +28,7 @@
"projects": {
"data": [
{
- "id": "459",
+ "id": "1022252557",
"type": "projects"
}
]
@@ -36,7 +36,7 @@
"data_files": {
"data": [
{
- "id": "28",
+ "id": "883654388",
"type": "data_files"
}
]
@@ -44,7 +44,7 @@
"presentations": {
"data": [
{
- "id": "20",
+ "id": "145",
"type": "presentations"
}
]
@@ -52,7 +52,7 @@
"publications": {
"data": [
{
- "id": "34",
+ "id": "330",
"type": "publications"
}
]
diff --git a/public/api/examples/eventPatchResponse.json b/public/api/examples/eventPatchResponse.json
index 137ba3028c..5e107d611a 100644
--- a/public/api/examples/eventPatchResponse.json
+++ b/public/api/examples/eventPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "20",
+ "id": "1025618785",
"type": "events",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "459",
+ "id": "1022252557",
"type": "projects"
},
"access": "edit"
@@ -28,7 +28,7 @@
"submitter": {
"data": [
{
- "id": "424",
+ "id": "1039988454",
"type": "people"
}
]
@@ -36,7 +36,7 @@
"projects": {
"data": [
{
- "id": "459",
+ "id": "1022252557",
"type": "projects"
}
]
@@ -44,7 +44,7 @@
"data_files": {
"data": [
{
- "id": "28",
+ "id": "883654388",
"type": "data_files"
}
]
@@ -52,7 +52,7 @@
"publications": {
"data": [
{
- "id": "34",
+ "id": "330",
"type": "publications"
}
]
@@ -60,21 +60,21 @@
"presentations": {
"data": [
{
- "id": "20",
+ "id": "145",
"type": "presentations"
}
]
}
},
"links": {
- "self": "/events/20"
+ "self": "/events/1025618785"
},
"meta": {
- "created": "2022-06-07T14:13:27.000Z",
- "modified": "2022-06-07T14:13:27.000Z",
+ "created": "2024-06-20T12:39:01.000Z",
+ "modified": "2024-06-20T12:39:01.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "ecc58c30-c899-013a-0f7e-0a81884ed284"
+ "uuid": "fea3a130-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/eventPost.json b/public/api/examples/eventPost.json
index 33efa56b00..39a2d474ea 100644
--- a/public/api/examples/eventPost.json
+++ b/public/api/examples/eventPost.json
@@ -9,7 +9,7 @@
"permissions": [
{
"resource": {
- "id": "436",
+ "id": "1022252534",
"type": "projects"
},
"access": "edit"
@@ -27,7 +27,7 @@
"projects": {
"data": [
{
- "id": "436",
+ "id": "1022252534",
"type": "projects"
}
]
@@ -35,7 +35,7 @@
"data_files": {
"data": [
{
- "id": "23",
+ "id": "883654383",
"type": "data_files"
}
]
@@ -43,7 +43,7 @@
"presentations": {
"data": [
{
- "id": "15",
+ "id": "140",
"type": "presentations"
}
]
@@ -51,7 +51,7 @@
"publications": {
"data": [
{
- "id": "29",
+ "id": "325",
"type": "publications"
}
]
diff --git a/public/api/examples/eventPostResponse.json b/public/api/examples/eventPostResponse.json
index d85dd32902..273456ee2d 100644
--- a/public/api/examples/eventPostResponse.json
+++ b/public/api/examples/eventPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "14",
+ "id": "1025618779",
"type": "events",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "436",
+ "id": "1022252534",
"type": "projects"
},
"access": "edit"
@@ -28,7 +28,7 @@
"submitter": {
"data": [
{
- "id": "406",
+ "id": "1039988436",
"type": "people"
}
]
@@ -36,7 +36,7 @@
"projects": {
"data": [
{
- "id": "436",
+ "id": "1022252534",
"type": "projects"
}
]
@@ -44,7 +44,7 @@
"data_files": {
"data": [
{
- "id": "23",
+ "id": "883654383",
"type": "data_files"
}
]
@@ -52,7 +52,7 @@
"publications": {
"data": [
{
- "id": "29",
+ "id": "325",
"type": "publications"
}
]
@@ -60,21 +60,21 @@
"presentations": {
"data": [
{
- "id": "15",
+ "id": "140",
"type": "presentations"
}
]
}
},
"links": {
- "self": "/events/14"
+ "self": "/events/1025618779"
},
"meta": {
- "created": "2022-06-07T14:13:24.000Z",
- "modified": "2022-06-07T14:13:24.000Z",
+ "created": "2024-06-20T12:38:58.000Z",
+ "modified": "2024-06-20T12:38:58.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "eb17d850-c899-013a-0f7e-0a81884ed284"
+ "uuid": "fd1d2960-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/eventResponse.json b/public/api/examples/eventResponse.json
index ab07d91b5c..2ee8c38baf 100644
--- a/public/api/examples/eventResponse.json
+++ b/public/api/examples/eventResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "19",
+ "id": "1025618784",
"type": "events",
"attributes": {
"policy": {
@@ -22,7 +22,7 @@
"submitter": {
"data": [
{
- "id": "422",
+ "id": "1039988452",
"type": "people"
}
]
@@ -30,7 +30,7 @@
"projects": {
"data": [
{
- "id": "457",
+ "id": "1022252555",
"type": "projects"
}
]
@@ -38,7 +38,7 @@
"data_files": {
"data": [
{
- "id": "27",
+ "id": "883654387",
"type": "data_files"
}
]
@@ -46,7 +46,7 @@
"publications": {
"data": [
{
- "id": "33",
+ "id": "329",
"type": "publications"
}
]
@@ -54,21 +54,21 @@
"presentations": {
"data": [
{
- "id": "19",
+ "id": "144",
"type": "presentations"
}
]
}
},
"links": {
- "self": "/events/19"
+ "self": "/events/1025618784"
},
"meta": {
- "created": "2022-06-07T14:13:27.000Z",
- "modified": "2022-06-07T14:13:27.000Z",
+ "created": "2024-06-20T12:39:00.000Z",
+ "modified": "2024-06-20T12:39:00.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "ec66f880-c899-013a-0f7e-0a81884ed284"
+ "uuid": "fe4eb280-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/extendedMetadataTypeResponse.json b/public/api/examples/extendedMetadataTypeResponse.json
index 23f238bd37..523ea4629f 100644
--- a/public/api/examples/extendedMetadataTypeResponse.json
+++ b/public/api/examples/extendedMetadataTypeResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "233",
+ "id": "278",
"type": "extended_metadata_types",
"attributes": {
"title": "A Max Extended Metadata Type",
@@ -8,13 +8,13 @@
"enabled": true,
"extended_metadata_attributes": [
{
- "id": "502",
+ "id": "652",
"title": "age",
"label": "Age",
"description": null,
"sample_attribute_type": {
- "id": "539",
- "title": "Integer attribute type 4",
+ "id": "765",
+ "title": "Integer attribute type 43",
"base_type": "Integer",
"regexp": ".*"
},
@@ -24,13 +24,13 @@
"linked_extended_metadata_type_id": null
},
{
- "id": "503",
+ "id": "653",
"title": "name",
"label": "Name",
"description": null,
"sample_attribute_type": {
- "id": "540",
- "title": "String attribute type 7",
+ "id": "766",
+ "title": "String attribute type 483",
"base_type": "String",
"regexp": ".*"
},
@@ -40,13 +40,13 @@
"linked_extended_metadata_type_id": null
},
{
- "id": "504",
+ "id": "654",
"title": "date",
"label": "Date",
"description": null,
"sample_attribute_type": {
- "id": "541",
- "title": "DateTime attribute type 4",
+ "id": "767",
+ "title": "DateTime attribute type 43",
"base_type": "DateTime",
"regexp": ".*"
},
@@ -58,7 +58,7 @@
]
},
"links": {
- "self": "/extended_metadata_types/233"
+ "self": "/extended_metadata_types/278"
},
"meta": {
"api_version": "0.3",
diff --git a/public/api/examples/extendedMetadataTypesResponse.json b/public/api/examples/extendedMetadataTypesResponse.json
index 08b883ad75..3397b0a138 100644
--- a/public/api/examples/extendedMetadataTypesResponse.json
+++ b/public/api/examples/extendedMetadataTypesResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "231",
+ "id": "276",
"type": "extended_metadata_types",
"attributes": {
"title": "A Min Extended Metadata Type"
},
"links": {
- "self": "/extended_metadata_types/231"
+ "self": "/extended_metadata_types/276"
}
},
{
- "id": "232",
+ "id": "277",
"type": "extended_metadata_types",
"attributes": {
"title": "A Max Extended Metadata Type"
},
"links": {
- "self": "/extended_metadata_types/232"
+ "self": "/extended_metadata_types/277"
}
}
],
diff --git a/public/api/examples/fileTemplatePatch.json b/public/api/examples/fileTemplatePatch.json
index cfa2e690de..014123c381 100644
--- a/public/api/examples/fileTemplatePatch.json
+++ b/public/api/examples/fileTemplatePatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "file_templates",
- "id": "41",
+ "id": "57",
"attributes": {
"title": "A Maximal FileTemplate",
"description": "This is the description",
@@ -28,7 +28,7 @@
"permissions": [
{
"resource": {
- "id": "278",
+ "id": "1022253159",
"type": "projects"
},
"access": "edit"
@@ -40,7 +40,7 @@
"creators": {
"data": [
{
- "id": "333",
+ "id": "1039989032",
"type": "people"
}
]
@@ -48,7 +48,7 @@
"projects": {
"data": [
{
- "id": "278",
+ "id": "1022253159",
"type": "projects"
}
]
diff --git a/public/api/examples/fileTemplatePatchResponse.json b/public/api/examples/fileTemplatePatchResponse.json
index f27d5d3117..c1d21ce9ab 100644
--- a/public/api/examples/fileTemplatePatchResponse.json
+++ b/public/api/examples/fileTemplatePatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "41",
+ "id": "57",
"type": "file_templates",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "278",
+ "id": "1022253159",
"type": "projects"
},
"access": "edit"
@@ -30,32 +30,32 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/file_templates/41?version=1",
+ "url": "http://localhost:3000/file_templates/57?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-07-22T12:42:27.000Z",
- "updated_at": "2022-07-22T12:42:27.000Z",
+ "created_at": "2024-06-20T12:40:27.000Z",
+ "updated_at": "2024-06-20T12:40:27.000Z",
"doi": null,
"content_blobs": [
{
- "original_filename": "file-28",
+ "original_filename": "file-368",
"url": null,
- "md5sum": "b2379ac13d99328ff8aa2f2f2c1ffa34",
- "sha1sum": "d62c0071c03bbf35eba082bdd2f468fb16868475",
+ "md5sum": "e0c27fbf19a1ba9e8a59da2f80c87669",
+ "sha1sum": "286c276b6576eb983f1e142146e9bfd550790094",
"content_type": "application/pdf",
- "link": "http://localhost:3000/file_templates/41/content_blobs/126",
- "size": 9
+ "link": "http://localhost:3000/file_templates/57/content_blobs/1050453383",
+ "size": 10
}
],
"creators": [
{
- "profile": "/people/333",
+ "profile": "/people/1039989032",
"family_name": "Last",
- "given_name": "Person269",
- "affiliation": "An Institution: 333",
+ "given_name": "Person3762",
+ "affiliation": "An Institution: 4688",
"orcid": null
}
],
@@ -77,7 +77,7 @@
"creators": {
"data": [
{
- "id": "333",
+ "id": "1039989032",
"type": "people"
}
]
@@ -85,7 +85,7 @@
"submitter": {
"data": [
{
- "id": "332",
+ "id": "1039989031",
"type": "people"
}
]
@@ -93,11 +93,11 @@
"people": {
"data": [
{
- "id": "332",
+ "id": "1039989031",
"type": "people"
},
{
- "id": "333",
+ "id": "1039989032",
"type": "people"
}
]
@@ -105,7 +105,7 @@
"projects": {
"data": [
{
- "id": "278",
+ "id": "1022253159",
"type": "projects"
}
]
@@ -122,14 +122,14 @@
}
},
"links": {
- "self": "/file_templates/41?version=1"
+ "self": "/file_templates/57?version=1"
},
"meta": {
- "created": "2022-07-22T12:42:27.000Z",
- "modified": "2022-07-22T12:42:27.000Z",
+ "created": "2024-06-20T12:40:27.000Z",
+ "modified": "2024-06-20T12:40:27.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "ab016810-ebe9-013a-1162-0a81884ed284"
+ "uuid": "32287d20-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/fileTemplatePost.json b/public/api/examples/fileTemplatePost.json
index c3e1a403bb..ebc5b3034f 100644
--- a/public/api/examples/fileTemplatePost.json
+++ b/public/api/examples/fileTemplatePost.json
@@ -33,7 +33,7 @@
"permissions": [
{
"resource": {
- "id": "256",
+ "id": "1022253137",
"type": "projects"
},
"access": "edit"
@@ -45,7 +45,7 @@
"creators": {
"data": [
{
- "id": "311",
+ "id": "1039989010",
"type": "people"
}
]
@@ -53,7 +53,7 @@
"projects": {
"data": [
{
- "id": "256",
+ "id": "1022253137",
"type": "projects"
}
]
diff --git a/public/api/examples/fileTemplatePostResponse.json b/public/api/examples/fileTemplatePostResponse.json
index 62fa8deab1..8e870c9c47 100644
--- a/public/api/examples/fileTemplatePostResponse.json
+++ b/public/api/examples/fileTemplatePostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "35",
+ "id": "51",
"type": "file_templates",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "256",
+ "id": "1022253137",
"type": "projects"
},
"access": "edit"
@@ -30,14 +30,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/file_templates/35?version=1",
+ "url": "http://localhost:3000/file_templates/51?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-07-22T12:42:24.000Z",
- "updated_at": "2022-07-22T12:42:24.000Z",
+ "created_at": "2024-06-20T12:40:25.000Z",
+ "updated_at": "2024-06-20T12:40:25.000Z",
"doi": null,
"content_blobs": [
{
@@ -46,16 +46,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/file_templates/35/content_blobs/118",
+ "link": "http://localhost:3000/file_templates/51/content_blobs/1050453377",
"size": null
}
],
"creators": [
{
- "profile": "/people/311",
+ "profile": "/people/1039989010",
"family_name": "Last",
- "given_name": "Person252",
- "affiliation": "An Institution: 311",
+ "given_name": "Person3745",
+ "affiliation": "An Institution: 4666",
"orcid": null
}
],
@@ -77,7 +77,7 @@
"creators": {
"data": [
{
- "id": "311",
+ "id": "1039989010",
"type": "people"
}
]
@@ -85,7 +85,7 @@
"submitter": {
"data": [
{
- "id": "310",
+ "id": "1039989009",
"type": "people"
}
]
@@ -93,11 +93,11 @@
"people": {
"data": [
{
- "id": "310",
+ "id": "1039989009",
"type": "people"
},
{
- "id": "311",
+ "id": "1039989010",
"type": "people"
}
]
@@ -105,7 +105,7 @@
"projects": {
"data": [
{
- "id": "256",
+ "id": "1022253137",
"type": "projects"
}
]
@@ -122,14 +122,14 @@
}
},
"links": {
- "self": "/file_templates/35?version=1"
+ "self": "/file_templates/51?version=1"
},
"meta": {
- "created": "2022-07-22T12:42:24.000Z",
- "modified": "2022-07-22T12:42:24.000Z",
+ "created": "2024-06-20T12:40:25.000Z",
+ "modified": "2024-06-20T12:40:25.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "a9467070-ebe9-013a-1162-0a81884ed284"
+ "uuid": "30c2bc40-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/fileTemplateResponse.json b/public/api/examples/fileTemplateResponse.json
index 1bf2bbb14e..b0912aa831 100644
--- a/public/api/examples/fileTemplateResponse.json
+++ b/public/api/examples/fileTemplateResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "40",
+ "id": "56",
"type": "file_templates",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "8",
+ "id": "268",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/file_templates/40?version=1",
+ "url": "http://localhost:3000/file_templates/56?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-07-22T12:42:27.000Z",
- "updated_at": "2022-07-22T12:42:27.000Z",
+ "created_at": "2024-06-20T12:40:27.000Z",
+ "updated_at": "2024-06-20T12:40:27.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,13 +47,13 @@
"md5sum": "726de0a3f94d65056b909b9736e10349",
"sha1sum": "fbcc0dee4b5415de4c82ef5b137d8231fec1331b",
"content_type": "application/pdf",
- "link": "http://localhost:3000/file_templates/40/content_blobs/125",
+ "link": "http://localhost:3000/file_templates/56/content_blobs/1050453382",
"size": 8
}
],
"creators": [
{
- "profile": "/people/329",
+ "profile": "/people/1039989028",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -78,7 +78,7 @@
"creators": {
"data": [
{
- "id": "329",
+ "id": "1039989028",
"type": "people"
}
]
@@ -86,7 +86,7 @@
"submitter": {
"data": [
{
- "id": "330",
+ "id": "1039989029",
"type": "people"
}
]
@@ -94,11 +94,11 @@
"people": {
"data": [
{
- "id": "329",
+ "id": "1039989028",
"type": "people"
},
{
- "id": "330",
+ "id": "1039989029",
"type": "people"
}
]
@@ -106,7 +106,7 @@
"projects": {
"data": [
{
- "id": "276",
+ "id": "1022253157",
"type": "projects"
}
]
@@ -123,14 +123,14 @@
}
},
"links": {
- "self": "/file_templates/40?version=1"
+ "self": "/file_templates/56?version=1"
},
"meta": {
- "created": "2022-07-22T12:42:27.000Z",
- "modified": "2022-07-22T12:42:27.000Z",
+ "created": "2024-06-20T12:40:27.000Z",
+ "modified": "2024-06-20T12:40:27.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "aab736b0-ebe9-013a-1162-0a81884ed284"
+ "uuid": "31eb13a0-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/fileTemplatesResponse.json b/public/api/examples/fileTemplatesResponse.json
index 953e0201be..cb93857e76 100644
--- a/public/api/examples/fileTemplatesResponse.json
+++ b/public/api/examples/fileTemplatesResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "38",
+ "id": "54",
"type": "file_templates",
"attributes": {
"title": "A Maximal FileTemplate"
},
"links": {
- "self": "/file_templates/38"
+ "self": "/file_templates/54"
}
},
{
- "id": "37",
+ "id": "53",
"type": "file_templates",
"attributes": {
"title": "A Minimal FileTemplate"
},
"links": {
- "self": "/file_templates/37"
+ "self": "/file_templates/53"
}
}
],
diff --git a/public/api/examples/humanDiseaseResponse.json b/public/api/examples/humanDiseaseResponse.json
index 17e8afbda8..b8edb9610d 100644
--- a/public/api/examples/humanDiseaseResponse.json
+++ b/public/api/examples/humanDiseaseResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "3",
+ "id": "647916208",
"type": "human_diseases",
"attributes": {
"title": "A Maximal Human Disease",
@@ -11,7 +11,7 @@
"projects": {
"data": [
{
- "id": "934",
+ "id": "1022252597",
"type": "projects"
}
]
@@ -19,7 +19,7 @@
"assays": {
"data": [
{
- "id": "127",
+ "id": "1035386884",
"type": "assays"
}
]
@@ -27,7 +27,7 @@
"models": {
"data": [
{
- "id": "137",
+ "id": "1004285591",
"type": "models"
}
]
@@ -44,14 +44,14 @@
}
},
"links": {
- "self": "/human_diseases/3"
+ "self": "/human_diseases/647916208"
},
"meta": {
- "created": "2022-06-07T14:14:35.000Z",
- "modified": "2022-06-07T14:14:35.000Z",
+ "created": "2024-06-20T12:39:06.000Z",
+ "modified": "2024-06-20T12:39:06.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "15063e40-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "01c01bc0-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/institutionPatch.json b/public/api/examples/institutionPatch.json
index 378edaad18..86385c924f 100644
--- a/public/api/examples/institutionPatch.json
+++ b/public/api/examples/institutionPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "institutions",
- "id": "641",
+ "id": "980191687",
"attributes": {
"title": "Patched institution",
"web_page": "http://my.institution.com",
diff --git a/public/api/examples/institutionPatchResponse.json b/public/api/examples/institutionPatchResponse.json
index 78d95847d6..e77d7b9029 100644
--- a/public/api/examples/institutionPatchResponse.json
+++ b/public/api/examples/institutionPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "641",
+ "id": "980191687",
"type": "institutions",
"attributes": {
"discussion_links": [
@@ -27,14 +27,14 @@
}
},
"links": {
- "self": "/institutions/641"
+ "self": "/institutions/980191687"
},
"meta": {
- "created": "2022-06-07T14:14:01.000Z",
- "modified": "2022-06-07T14:14:01.000Z",
+ "created": "2024-06-20T12:35:59.000Z",
+ "modified": "2024-06-20T12:35:59.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "00e18f40-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "92430100-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/institutionPost.json b/public/api/examples/institutionPost.json
index f4974285b1..1bb0ab2b36 100644
--- a/public/api/examples/institutionPost.json
+++ b/public/api/examples/institutionPost.json
@@ -2,7 +2,7 @@
"data": {
"type": "institutions",
"attributes": {
- "title": "Post Institution 627 Max",
+ "title": "Post Institution 980191673 Max",
"country": "United Kingdom",
"city": "Manchester",
"address": "Manchester Centre for Integrative Systems Biology, MIB/CEAS, The University of Manchester Faraday Building, Sackville Street, Manchester M60 1QD United Kingdom",
diff --git a/public/api/examples/institutionPostResponse.json b/public/api/examples/institutionPostResponse.json
index 271f621a54..8b71ab51a8 100644
--- a/public/api/examples/institutionPostResponse.json
+++ b/public/api/examples/institutionPostResponse.json
@@ -1,13 +1,13 @@
{
"data": {
- "id": "627",
+ "id": "980191673",
"type": "institutions",
"attributes": {
"discussion_links": [
],
"avatar": null,
- "title": "Post Institution 627 Max",
+ "title": "Post Institution 980191673 Max",
"country": "United Kingdom",
"country_code": "GB",
"city": "Manchester",
@@ -27,14 +27,14 @@
}
},
"links": {
- "self": "/institutions/627"
+ "self": "/institutions/980191673"
},
"meta": {
- "created": "2022-06-07T14:14:00.000Z",
- "modified": "2022-06-07T14:14:00.000Z",
+ "created": "2024-06-20T12:35:58.000Z",
+ "modified": "2024-06-20T12:35:58.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "0054b090-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "91ca2e80-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/institutionResponse.json b/public/api/examples/institutionResponse.json
index 5c2563cfba..9394a7d6b7 100644
--- a/public/api/examples/institutionResponse.json
+++ b/public/api/examples/institutionResponse.json
@@ -1,11 +1,11 @@
{
"data": {
- "id": "638",
+ "id": "980191684",
"type": "institutions",
"attributes": {
"discussion_links": [
{
- "id": "56",
+ "id": "183",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
}
},
"links": {
- "self": "/institutions/638"
+ "self": "/institutions/980191684"
},
"meta": {
- "created": "2022-06-07T14:14:01.000Z",
- "modified": "2022-06-07T14:14:01.000Z",
+ "created": "2024-06-20T12:35:59.000Z",
+ "modified": "2024-06-20T12:35:59.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "00bfa1b0-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "9223aad0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/institutionsResponse.json b/public/api/examples/institutionsResponse.json
index 8296ec2b28..bc3425e39d 100644
--- a/public/api/examples/institutionsResponse.json
+++ b/public/api/examples/institutionsResponse.json
@@ -1,33 +1,33 @@
{
"data": [
{
- "id": "633",
+ "id": "980191679",
"type": "institutions",
"attributes": {
"title": "A Maximal Institution"
},
"links": {
- "self": "/institutions/633"
+ "self": "/institutions/980191679"
}
},
{
- "id": "631",
+ "id": "980191677",
"type": "institutions",
"attributes": {
"title": "A Minimal Institution"
},
"links": {
- "self": "/institutions/631"
+ "self": "/institutions/980191677"
}
},
{
- "id": "632",
+ "id": "980191678",
"type": "institutions",
"attributes": {
- "title": "An Institution: 630"
+ "title": "An Institution: 2812"
},
"links": {
- "self": "/institutions/632"
+ "self": "/institutions/980191678"
}
}
],
diff --git a/public/api/examples/investigationPatch.json b/public/api/examples/investigationPatch.json
index f234da50c4..9d40ca7494 100644
--- a/public/api/examples/investigationPatch.json
+++ b/public/api/examples/investigationPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "investigations",
- "id": "127",
+ "id": "425",
"attributes": {
"title": "A Maximal Investigation",
"policy": {
@@ -10,14 +10,14 @@
{
"resource": {
"type": "projects",
- "id": "644"
+ "id": "2199"
},
"access": "manage"
},
{
"resource": {
"type": "projects",
- "id": "675"
+ "id": "2234"
},
"access": "manage"
}
@@ -31,18 +31,18 @@
"data": [
{
"type": "projects",
- "id": "644"
+ "id": "2199"
},
{
"type": "projects",
- "id": "675"
+ "id": "2234"
}
]
},
"publications": {
"data": [
{
- "id": "54",
+ "id": "126",
"type": "publications"
}
]
@@ -50,7 +50,7 @@
"creators": {
"data": [
{
- "id": "588",
+ "id": "1908",
"type": "people"
}
]
diff --git a/public/api/examples/investigationPatchResponse.json b/public/api/examples/investigationPatchResponse.json
index 15d6ea649a..0b59d5ced4 100644
--- a/public/api/examples/investigationPatchResponse.json
+++ b/public/api/examples/investigationPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "127",
+ "id": "425",
"type": "investigations",
"attributes": {
"policy": {
@@ -8,14 +8,14 @@
"permissions": [
{
"resource": {
- "id": "644",
+ "id": "2199",
"type": "projects"
},
"access": "manage"
},
{
"resource": {
- "id": "675",
+ "id": "2234",
"type": "projects"
},
"access": "manage"
@@ -34,10 +34,10 @@
"position": null,
"creators": [
{
- "profile": "/people/588",
+ "profile": "/people/1908",
"family_name": "Last",
- "given_name": "Person493",
- "affiliation": "An Institution: 593, An Institution: 622",
+ "given_name": "Person1608",
+ "affiliation": "An Institution: 1959, An Institution: 1992",
"orcid": null
}
]
@@ -46,7 +46,7 @@
"creators": {
"data": [
{
- "id": "588",
+ "id": "1908",
"type": "people"
}
]
@@ -54,7 +54,7 @@
"submitter": {
"data": [
{
- "id": "588",
+ "id": "1908",
"type": "people"
}
]
@@ -62,7 +62,7 @@
"people": {
"data": [
{
- "id": "588",
+ "id": "1908",
"type": "people"
}
]
@@ -70,11 +70,11 @@
"projects": {
"data": [
{
- "id": "644",
+ "id": "2199",
"type": "projects"
},
{
- "id": "675",
+ "id": "2234",
"type": "projects"
}
]
@@ -107,7 +107,7 @@
"publications": {
"data": [
{
- "id": "54",
+ "id": "126",
"type": "publications"
}
]
@@ -119,14 +119,14 @@
}
},
"links": {
- "self": "/investigations/127"
+ "self": "/investigations/425"
},
"meta": {
- "created": "2022-06-07T14:14:00.000Z",
- "modified": "2022-06-07T14:14:00.000Z",
+ "created": "2024-06-20T12:33:50.000Z",
+ "modified": "2024-06-20T12:33:50.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "0018a560-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "451e5cd0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/investigationPost.json b/public/api/examples/investigationPost.json
index c124709c9f..c0e0ba8e5d 100644
--- a/public/api/examples/investigationPost.json
+++ b/public/api/examples/investigationPost.json
@@ -9,14 +9,14 @@
{
"resource": {
"type": "projects",
- "id": "499"
+ "id": "2036"
},
"access": "manage"
},
{
"resource": {
"type": "projects",
- "id": "530"
+ "id": "2071"
},
"access": "manage"
}
@@ -30,18 +30,18 @@
"data": [
{
"type": "projects",
- "id": "499"
+ "id": "2036"
},
{
"type": "projects",
- "id": "530"
+ "id": "2071"
}
]
},
"publications": {
"data": [
{
- "id": "43",
+ "id": "115",
"type": "publications"
}
]
@@ -49,7 +49,7 @@
"creators": {
"data": [
{
- "id": "460",
+ "id": "1762",
"type": "people"
}
]
diff --git a/public/api/examples/investigationPostResponse.json b/public/api/examples/investigationPostResponse.json
index e417d1a514..fd6adc7dc4 100644
--- a/public/api/examples/investigationPostResponse.json
+++ b/public/api/examples/investigationPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "88",
+ "id": "381",
"type": "investigations",
"attributes": {
"policy": {
@@ -8,14 +8,14 @@
"permissions": [
{
"resource": {
- "id": "499",
+ "id": "2036",
"type": "projects"
},
"access": "manage"
},
{
"resource": {
- "id": "530",
+ "id": "2071",
"type": "projects"
},
"access": "manage"
@@ -34,10 +34,10 @@
"position": null,
"creators": [
{
- "profile": "/people/460",
+ "profile": "/people/1762",
"family_name": "Last",
- "given_name": "Person383",
- "affiliation": "An Institution: 462, An Institution: 491",
+ "given_name": "Person1480",
+ "affiliation": "An Institution: 1810, An Institution: 1843",
"orcid": null
}
]
@@ -46,7 +46,7 @@
"creators": {
"data": [
{
- "id": "460",
+ "id": "1762",
"type": "people"
}
]
@@ -54,7 +54,7 @@
"submitter": {
"data": [
{
- "id": "460",
+ "id": "1762",
"type": "people"
}
]
@@ -62,7 +62,7 @@
"people": {
"data": [
{
- "id": "460",
+ "id": "1762",
"type": "people"
}
]
@@ -70,11 +70,11 @@
"projects": {
"data": [
{
- "id": "499",
+ "id": "2036",
"type": "projects"
},
{
- "id": "530",
+ "id": "2071",
"type": "projects"
}
]
@@ -107,7 +107,7 @@
"publications": {
"data": [
{
- "id": "43",
+ "id": "115",
"type": "publications"
}
]
@@ -119,14 +119,14 @@
}
},
"links": {
- "self": "/investigations/88"
+ "self": "/investigations/381"
},
"meta": {
- "created": "2022-06-07T14:13:39.000Z",
- "modified": "2022-06-07T14:13:39.000Z",
+ "created": "2024-06-20T12:33:29.000Z",
+ "modified": "2024-06-20T12:33:29.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "f3edefa0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "3924d830-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/investigationResponse.json b/public/api/examples/investigationResponse.json
index 5aa69d899a..5d70dda339 100644
--- a/public/api/examples/investigationResponse.json
+++ b/public/api/examples/investigationResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "119",
+ "id": "416",
"type": "investigations",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "50",
+ "id": "156",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -25,7 +25,7 @@
"position": null,
"creators": [
{
- "profile": "/people/571",
+ "profile": "/people/1888",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -37,7 +37,7 @@
"creators": {
"data": [
{
- "id": "571",
+ "id": "1888",
"type": "people"
}
]
@@ -45,7 +45,7 @@
"submitter": {
"data": [
{
- "id": "572",
+ "id": "1889",
"type": "people"
}
]
@@ -53,11 +53,11 @@
"people": {
"data": [
{
- "id": "571",
+ "id": "1888",
"type": "people"
},
{
- "id": "572",
+ "id": "1889",
"type": "people"
}
]
@@ -65,7 +65,7 @@
"projects": {
"data": [
{
- "id": "626",
+ "id": "2178",
"type": "projects"
}
]
@@ -73,7 +73,7 @@
"studies": {
"data": [
{
- "id": "105",
+ "id": "346",
"type": "studies"
}
]
@@ -81,7 +81,7 @@
"assays": {
"data": [
{
- "id": "93",
+ "id": "286",
"type": "assays"
}
]
@@ -89,7 +89,7 @@
"data_files": {
"data": [
{
- "id": "40",
+ "id": "111",
"type": "data_files"
}
]
@@ -97,7 +97,7 @@
"models": {
"data": [
{
- "id": "92",
+ "id": "127",
"type": "models"
}
]
@@ -105,7 +105,7 @@
"sops": {
"data": [
{
- "id": "38",
+ "id": "133",
"type": "sops"
}
]
@@ -113,7 +113,7 @@
"publications": {
"data": [
{
- "id": "51",
+ "id": "123",
"type": "publications"
}
]
@@ -121,21 +121,21 @@
"documents": {
"data": [
{
- "id": "48",
+ "id": "156",
"type": "documents"
}
]
}
},
"links": {
- "self": "/investigations/119"
+ "self": "/investigations/416"
},
"meta": {
- "created": "2022-06-07T14:13:55.000Z",
- "modified": "2022-06-07T14:13:55.000Z",
+ "created": "2024-06-20T12:33:45.000Z",
+ "modified": "2024-06-20T12:33:45.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "fd2c1ed0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "424a8c50-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/investigationsResponse.json b/public/api/examples/investigationsResponse.json
index 0ad32b0614..b8711dda12 100644
--- a/public/api/examples/investigationsResponse.json
+++ b/public/api/examples/investigationsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "103",
+ "id": "398",
"type": "investigations",
"attributes": {
- "title": "Investigation85"
+ "title": "Investigation320"
},
"links": {
- "self": "/investigations/103"
+ "self": "/investigations/398"
}
},
{
- "id": "98",
+ "id": "392",
"type": "investigations",
"attributes": {
"title": "A Minimal Investigation"
},
"links": {
- "self": "/investigations/98"
+ "self": "/investigations/392"
}
}
],
diff --git a/public/api/examples/modelPatch.json b/public/api/examples/modelPatch.json
index 2a442b440b..34c88bf590 100644
--- a/public/api/examples/modelPatch.json
+++ b/public/api/examples/modelPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "models",
- "id": "153",
+ "id": "1004285585",
"attributes": {
"title": "A Maximally Patched Model",
"description": "A simulation of a thing",
@@ -17,7 +17,7 @@
"permissions": [
{
"resource": {
- "id": "995",
+ "id": "1022251932",
"type": "projects"
},
"access": "edit"
@@ -29,7 +29,7 @@
"environment": "JWS Online",
"discussion_links": [
{
- "id": "81",
+ "id": "239",
"url": "http://yahoo.com",
"label": "Yahoo"
},
@@ -43,7 +43,7 @@
"creators": {
"data": [
{
- "id": "916",
+ "id": "1039987854",
"type": "people"
}
]
@@ -51,7 +51,7 @@
"organisms": {
"data": [
{
- "id": "35",
+ "id": "627234331",
"type": "organisms"
}
]
@@ -59,7 +59,7 @@
"projects": {
"data": [
{
- "id": "995",
+ "id": "1022251932",
"type": "projects"
}
]
@@ -67,7 +67,7 @@
"assays": {
"data": [
{
- "id": "139",
+ "id": "1035386814",
"type": "assays"
}
]
@@ -75,7 +75,7 @@
"publications": {
"data": [
{
- "id": "83",
+ "id": "299",
"type": "publications"
}
]
diff --git a/public/api/examples/modelPatchResponse.json b/public/api/examples/modelPatchResponse.json
index b3d330fc93..dcf1821a35 100644
--- a/public/api/examples/modelPatchResponse.json
+++ b/public/api/examples/modelPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "153",
+ "id": "1004285585",
"type": "models",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "995",
+ "id": "1022251932",
"type": "projects"
},
"access": "edit"
@@ -17,12 +17,12 @@
},
"discussion_links": [
{
- "id": "81",
+ "id": "239",
"label": "Yahoo",
"url": "http://yahoo.com"
},
{
- "id": "82",
+ "id": "240",
"label": "fish",
"url": "https://fish.com"
}
@@ -40,14 +40,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/models/153?version=1",
+ "url": "http://localhost:3000/models/1004285585?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:14:44.000Z",
- "updated_at": "2022-06-07T14:14:44.000Z",
+ "created_at": "2024-06-20T12:37:45.000Z",
+ "updated_at": "2024-06-20T12:37:45.000Z",
"doi": null,
"content_blobs": [
{
@@ -56,16 +56,16 @@
"md5sum": "6b9283ed4ca52a081398b715aaeb8113",
"sha1sum": "454e4b6067f577b680bb8538772b12ebcdb6c4a4",
"content_type": "application/xml",
- "link": "http://localhost:3000/models/153/content_blobs/404",
+ "link": "http://localhost:3000/models/1004285585/content_blobs/1050453030",
"size": 5933
}
],
"creators": [
{
- "profile": "/people/916",
+ "profile": "/people/1039987854",
"family_name": "Last",
- "given_name": "Person768",
- "affiliation": "An Institution: 930",
+ "given_name": "Person2807",
+ "affiliation": "An Institution: 3513",
"orcid": null
}
],
@@ -79,7 +79,7 @@
"creators": {
"data": [
{
- "id": "916",
+ "id": "1039987854",
"type": "people"
}
]
@@ -87,7 +87,7 @@
"submitter": {
"data": [
{
- "id": "915",
+ "id": "1039987853",
"type": "people"
}
]
@@ -95,7 +95,7 @@
"organisms": {
"data": [
{
- "id": "35",
+ "id": "627234331",
"type": "organisms"
}
]
@@ -103,11 +103,11 @@
"people": {
"data": [
{
- "id": "915",
+ "id": "1039987853",
"type": "people"
},
{
- "id": "916",
+ "id": "1039987854",
"type": "people"
}
]
@@ -115,7 +115,7 @@
"projects": {
"data": [
{
- "id": "995",
+ "id": "1022251932",
"type": "projects"
}
]
@@ -123,7 +123,7 @@
"investigations": {
"data": [
{
- "id": "187",
+ "id": "973655036",
"type": "investigations"
}
]
@@ -131,7 +131,7 @@
"studies": {
"data": [
{
- "id": "164",
+ "id": "1060385068",
"type": "studies"
}
]
@@ -139,7 +139,7 @@
"assays": {
"data": [
{
- "id": "139",
+ "id": "1035386814",
"type": "assays"
}
]
@@ -147,21 +147,21 @@
"publications": {
"data": [
{
- "id": "83",
+ "id": "299",
"type": "publications"
}
]
}
},
"links": {
- "self": "/models/153?version=1"
+ "self": "/models/1004285585?version=1"
},
"meta": {
- "created": "2022-06-07T14:14:44.000Z",
- "modified": "2022-06-07T14:14:44.000Z",
+ "created": "2024-06-20T12:37:45.000Z",
+ "modified": "2024-06-20T12:37:45.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "1a8db7c0-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "d14659c0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/modelPost.json b/public/api/examples/modelPost.json
index fee183de6e..bbaa72ccd9 100644
--- a/public/api/examples/modelPost.json
+++ b/public/api/examples/modelPost.json
@@ -25,7 +25,7 @@
"permissions": [
{
"resource": {
- "id": "961",
+ "id": "1022251898",
"type": "projects"
},
"access": "edit"
@@ -46,7 +46,7 @@
"creators": {
"data": [
{
- "id": "881",
+ "id": "1039987819",
"type": "people"
}
]
@@ -54,7 +54,7 @@
"organisms": {
"data": [
{
- "id": "30",
+ "id": "627234326",
"type": "organisms"
}
]
@@ -62,7 +62,7 @@
"projects": {
"data": [
{
- "id": "961",
+ "id": "1022251898",
"type": "projects"
}
]
@@ -70,7 +70,7 @@
"assays": {
"data": [
{
- "id": "134",
+ "id": "1035386809",
"type": "assays"
}
]
@@ -78,7 +78,7 @@
"publications": {
"data": [
{
- "id": "78",
+ "id": "294",
"type": "publications"
}
]
diff --git a/public/api/examples/modelPostResponse.json b/public/api/examples/modelPostResponse.json
index 3398b677f1..57f59b757c 100644
--- a/public/api/examples/modelPostResponse.json
+++ b/public/api/examples/modelPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "140",
+ "id": "1004285574",
"type": "models",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "961",
+ "id": "1022251898",
"type": "projects"
},
"access": "edit"
@@ -17,7 +17,7 @@
},
"discussion_links": [
{
- "id": "76",
+ "id": "234",
"label": "Google",
"url": "http://google.com"
}
@@ -34,14 +34,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/models/140?version=1",
+ "url": "http://localhost:3000/models/1004285574?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:14:39.000Z",
- "updated_at": "2022-06-07T14:14:39.000Z",
+ "created_at": "2024-06-20T12:37:40.000Z",
+ "updated_at": "2024-06-20T12:37:40.000Z",
"doi": null,
"content_blobs": [
{
@@ -50,7 +50,7 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/models/140/content_blobs/388",
+ "link": "http://localhost:3000/models/1004285574/content_blobs/1050453016",
"size": null
},
{
@@ -59,16 +59,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/xml",
- "link": "http://localhost:3000/models/140/content_blobs/389",
+ "link": "http://localhost:3000/models/1004285574/content_blobs/1050453017",
"size": null
}
],
"creators": [
{
- "profile": "/people/881",
+ "profile": "/people/1039987819",
"family_name": "Last",
- "given_name": "Person738",
- "affiliation": "An Institution: 895",
+ "given_name": "Person2777",
+ "affiliation": "An Institution: 3478",
"orcid": null
}
],
@@ -82,7 +82,7 @@
"creators": {
"data": [
{
- "id": "881",
+ "id": "1039987819",
"type": "people"
}
]
@@ -90,7 +90,7 @@
"submitter": {
"data": [
{
- "id": "880",
+ "id": "1039987818",
"type": "people"
}
]
@@ -98,7 +98,7 @@
"organisms": {
"data": [
{
- "id": "30",
+ "id": "627234326",
"type": "organisms"
}
]
@@ -106,11 +106,11 @@
"people": {
"data": [
{
- "id": "880",
+ "id": "1039987818",
"type": "people"
},
{
- "id": "881",
+ "id": "1039987819",
"type": "people"
}
]
@@ -118,7 +118,7 @@
"projects": {
"data": [
{
- "id": "961",
+ "id": "1022251898",
"type": "projects"
}
]
@@ -126,7 +126,7 @@
"investigations": {
"data": [
{
- "id": "182",
+ "id": "973655031",
"type": "investigations"
}
]
@@ -134,7 +134,7 @@
"studies": {
"data": [
{
- "id": "159",
+ "id": "1060385063",
"type": "studies"
}
]
@@ -142,7 +142,7 @@
"assays": {
"data": [
{
- "id": "134",
+ "id": "1035386809",
"type": "assays"
}
]
@@ -150,21 +150,21 @@
"publications": {
"data": [
{
- "id": "78",
+ "id": "294",
"type": "publications"
}
]
}
},
"links": {
- "self": "/models/140?version=1"
+ "self": "/models/1004285574?version=1"
},
"meta": {
- "created": "2022-06-07T14:14:39.000Z",
- "modified": "2022-06-07T14:14:39.000Z",
+ "created": "2024-06-20T12:37:40.000Z",
+ "modified": "2024-06-20T12:37:40.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "17884fa0-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "ceb6d280-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/modelResponse.json b/public/api/examples/modelResponse.json
index df8da90ab5..9d73a189fc 100644
--- a/public/api/examples/modelResponse.json
+++ b/public/api/examples/modelResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "151",
+ "id": "1004285583",
"type": "models",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "80",
+ "id": "238",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/models/151?version=1",
+ "url": "http://localhost:3000/models/1004285583?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:14:43.000Z",
- "updated_at": "2022-06-07T14:14:43.000Z",
+ "created_at": "2024-06-20T12:37:44.000Z",
+ "updated_at": "2024-06-20T12:37:44.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,7 +47,7 @@
"md5sum": "6b9283ed4ca52a081398b715aaeb8113",
"sha1sum": "454e4b6067f577b680bb8538772b12ebcdb6c4a4",
"content_type": "application/xml",
- "link": "http://localhost:3000/models/151/content_blobs/401",
+ "link": "http://localhost:3000/models/1004285583/content_blobs/1050453027",
"size": 5933
},
{
@@ -56,13 +56,13 @@
"md5sum": "01788bca93265d80e8127ca0039bb69b",
"sha1sum": "ffd634ac7564083ab7b66bc3eb2053cbc3d608f5",
"content_type": "application/vnd.ms-excel",
- "link": "http://localhost:3000/models/151/content_blobs/402",
+ "link": "http://localhost:3000/models/1004285583/content_blobs/1050453028",
"size": 9216
}
],
"creators": [
{
- "profile": "/people/912",
+ "profile": "/people/1039987850",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -79,7 +79,7 @@
"creators": {
"data": [
{
- "id": "912",
+ "id": "1039987850",
"type": "people"
}
]
@@ -87,7 +87,7 @@
"submitter": {
"data": [
{
- "id": "913",
+ "id": "1039987851",
"type": "people"
}
]
@@ -95,7 +95,7 @@
"organisms": {
"data": [
{
- "id": "34",
+ "id": "627234330",
"type": "organisms"
}
]
@@ -103,11 +103,11 @@
"people": {
"data": [
{
- "id": "912",
+ "id": "1039987850",
"type": "people"
},
{
- "id": "913",
+ "id": "1039987851",
"type": "people"
}
]
@@ -115,7 +115,7 @@
"projects": {
"data": [
{
- "id": "993",
+ "id": "1022251930",
"type": "projects"
}
]
@@ -123,7 +123,7 @@
"investigations": {
"data": [
{
- "id": "186",
+ "id": "973655035",
"type": "investigations"
}
]
@@ -131,7 +131,7 @@
"studies": {
"data": [
{
- "id": "163",
+ "id": "1060385067",
"type": "studies"
}
]
@@ -139,7 +139,7 @@
"assays": {
"data": [
{
- "id": "138",
+ "id": "1035386813",
"type": "assays"
}
]
@@ -147,21 +147,21 @@
"publications": {
"data": [
{
- "id": "82",
+ "id": "298",
"type": "publications"
}
]
}
},
"links": {
- "self": "/models/151?version=1"
+ "self": "/models/1004285583?version=1"
},
"meta": {
- "created": "2022-06-07T14:14:43.000Z",
- "modified": "2022-06-07T14:14:43.000Z",
+ "created": "2024-06-20T12:37:44.000Z",
+ "modified": "2024-06-20T12:37:44.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "19ebefa0-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "d0b92970-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/organismResponse.json b/public/api/examples/organismResponse.json
index 2c3253ca4a..8ce9321ad2 100644
--- a/public/api/examples/organismResponse.json
+++ b/public/api/examples/organismResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "5",
+ "id": "627234345",
"type": "organisms",
"attributes": {
"title": "A Maximal Organism",
@@ -11,7 +11,7 @@
"projects": {
"data": [
{
- "id": "108",
+ "id": "1022252761",
"type": "projects"
}
]
@@ -19,7 +19,7 @@
"assays": {
"data": [
{
- "id": "10",
+ "id": "1035386919",
"type": "assays"
}
]
@@ -27,21 +27,21 @@
"models": {
"data": [
{
- "id": "8",
+ "id": "1004285599",
"type": "models"
}
]
}
},
"links": {
- "self": "/organisms/5"
+ "self": "/organisms/627234345"
},
"meta": {
- "created": "2022-06-07T14:12:34.000Z",
- "modified": "2022-06-07T14:12:34.000Z",
+ "created": "2024-06-20T12:39:29.000Z",
+ "modified": "2024-06-20T12:39:29.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "cd394ea0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "0fbc5e60-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/organismsResponse.json b/public/api/examples/organismsResponse.json
index 501f4f70a7..009b4211c5 100644
--- a/public/api/examples/organismsResponse.json
+++ b/public/api/examples/organismsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "3",
+ "id": "627234343",
"type": "organisms",
"attributes": {
"title": "A Maximal Organism"
},
"links": {
- "self": "/organisms/3"
+ "self": "/organisms/627234343"
}
},
{
- "id": "2",
+ "id": "627234342",
"type": "organisms",
"attributes": {
"title": "A Minimal Organism"
},
"links": {
- "self": "/organisms/2"
+ "self": "/organisms/627234342"
}
}
],
diff --git a/public/api/examples/peopleResponse.json b/public/api/examples/peopleResponse.json
index 1b86b76561..55b3d060ef 100644
--- a/public/api/examples/peopleResponse.json
+++ b/public/api/examples/peopleResponse.json
@@ -1,63 +1,413 @@
{
"data": [
{
- "id": "105",
+ "id": "940849572",
+ "type": "people",
+ "attributes": {
+ "title": "Fred Aardvark"
+ },
+ "links": {
+ "self": "/people/940849572"
+ }
+ },
+ {
+ "id": "943873801",
+ "type": "people",
+ "attributes": {
+ "title": "Fred Azbo"
+ },
+ "links": {
+ "self": "/people/943873801"
+ }
+ },
+ {
+ "id": "913531622",
+ "type": "people",
+ "attributes": {
+ "title": "Fred David Bloggs"
+ },
+ "links": {
+ "self": "/people/913531622"
+ }
+ },
+ {
+ "id": "975827294",
+ "type": "people",
+ "attributes": {
+ "title": "Fred Blogs"
+ },
+ "links": {
+ "self": "/people/975827294"
+ }
+ },
+ {
+ "id": "643213978",
+ "type": "people",
+ "attributes": {
+ "title": "Johan Bollen"
+ },
+ "links": {
+ "self": "/people/643213978"
+ }
+ },
+ {
+ "id": "241477277",
+ "type": "people",
+ "attributes": {
+ "title": "Spam Bot"
+ },
+ "links": {
+ "self": "/people/241477277"
+ }
+ },
+ {
+ "id": "982117865",
+ "type": "people",
+ "attributes": {
+ "title": "OwnerOf DownloadForAllSysmoUsersPolicy"
+ },
+ "links": {
+ "self": "/people/982117865"
+ }
+ },
+ {
+ "id": "128215185",
+ "type": "people",
+ "attributes": {
+ "title": "I Am a Duplicate"
+ },
+ "links": {
+ "self": "/people/128215185"
+ }
+ },
+ {
+ "id": "514668853",
+ "type": "people",
+ "attributes": {
+ "title": "I Am a Duplicate"
+ },
+ "links": {
+ "self": "/people/514668853"
+ }
+ },
+ {
+ "id": "730501549",
+ "type": "people",
+ "attributes": {
+ "title": "OwnerOf EditingForAllSysMOUsersPolicy"
+ },
+ "links": {
+ "self": "/people/730501549"
+ }
+ },
+ {
+ "id": "601503375",
+ "type": "people",
+ "attributes": {
+ "title": "OwnerOf FullyPublicPolicy"
+ },
+ "links": {
+ "self": "/people/601503375"
+ }
+ },
+ {
+ "id": "198969080",
+ "type": "people",
+ "attributes": {
+ "title": "Alice Graeter"
+ },
+ "links": {
+ "self": "/people/198969080"
+ }
+ },
+ {
+ "id": "275726558",
+ "type": "people",
+ "attributes": {
+ "title": "SysMO-User InAllowlistAndDenylist"
+ },
+ "links": {
+ "self": "/people/275726558"
+ }
+ },
+ {
+ "id": "420064676",
+ "type": "people",
+ "attributes": {
+ "title": "SysMO-User InDenylist"
+ },
+ "links": {
+ "self": "/people/420064676"
+ }
+ },
+ {
+ "id": "701696858",
+ "type": "people",
+ "attributes": {
+ "title": "Quentin Jones"
+ },
+ "links": {
+ "self": "/people/701696858"
+ }
+ },
+ {
+ "id": "1039988351",
"type": "people",
"attributes": {
"title": "default admin Last"
},
"links": {
- "self": "/people/105"
+ "self": "/people/1039988351"
+ }
+ },
+ {
+ "id": "1039988352",
+ "type": "people",
+ "attributes": {
+ "title": "Person3241 Last"
+ },
+ "links": {
+ "self": "/people/1039988352"
}
},
{
- "id": "106",
+ "id": "1039988353",
"type": "people",
"attributes": {
- "title": "Person85 Last"
+ "title": "Person3242 Last"
},
"links": {
- "self": "/people/106"
+ "self": "/people/1039988353"
}
},
{
- "id": "107",
+ "id": "1039988355",
"type": "people",
"attributes": {
- "title": "Person86 Last"
+ "title": "Person3243 Last"
},
"links": {
- "self": "/people/107"
+ "self": "/people/1039988355"
}
},
{
- "id": "109",
+ "id": "12247987",
"type": "people",
"attributes": {
- "title": "Person87 Last"
+ "title": "Lastname"
},
"links": {
- "self": "/people/109"
+ "self": "/people/12247987"
}
},
{
- "id": "110",
+ "id": "1039988356",
"type": "people",
"attributes": {
"title": "Maximilian Maxi-Mum"
},
"links": {
- "self": "/people/110"
+ "self": "/people/1039988356"
}
},
{
- "id": "108",
+ "id": "1039988354",
"type": "people",
"attributes": {
"title": "Minimal"
},
"links": {
- "self": "/people/108"
+ "self": "/people/1039988354"
+ }
+ },
+ {
+ "id": "773249994",
+ "type": "people",
+ "attributes": {
+ "title": "Bob Müller"
+ },
+ "links": {
+ "self": "/people/773249994"
+ }
+ },
+ {
+ "id": "194977880",
+ "type": "people",
+ "attributes": {
+ "title": "OwnerOf MyFirstSop"
+ },
+ "links": {
+ "self": "/people/194977880"
+ }
+ },
+ {
+ "id": "523838188",
+ "type": "people",
+ "attributes": {
+ "title": "TestAccessor OnlyInAllowlist"
+ },
+ "links": {
+ "self": "/people/523838188"
+ }
+ },
+ {
+ "id": "1010894610",
+ "type": "people",
+ "attributes": {
+ "title": "TestAccessor OnlyInDenylist"
+ },
+ "links": {
+ "self": "/people/1010894610"
+ }
+ },
+ {
+ "id": "522086294",
+ "type": "people",
+ "attributes": {
+ "title": "Datafile Owner"
+ },
+ "links": {
+ "self": "/people/522086294"
+ }
+ },
+ {
+ "id": "574165609",
+ "type": "people",
+ "attributes": {
+ "title": "Model Owner"
+ },
+ "links": {
+ "self": "/people/574165609"
+ }
+ },
+ {
+ "id": "1038269682",
+ "type": "people",
+ "attributes": {
+ "title": "Random Person"
+ },
+ "links": {
+ "self": "/people/1038269682"
+ }
+ },
+ {
+ "id": "249179401",
+ "type": "people",
+ "attributes": {
+ "title": "Person Place_holder"
+ },
+ "links": {
+ "self": "/people/249179401"
+ }
+ },
+ {
+ "id": "921288942",
+ "type": "people",
+ "attributes": {
+ "title": "OwnerOf PrivatePolicyUsingCustomSharing"
+ },
+ "links": {
+ "self": "/people/921288942"
+ }
+ },
+ {
+ "id": "113629430",
+ "type": "people",
+ "attributes": {
+ "title": "No_user Smith"
+ },
+ "links": {
+ "self": "/people/113629430"
+ }
+ },
+ {
+ "id": "847710731",
+ "type": "people",
+ "attributes": {
+ "title": "Fred Smith Jones"
+ },
+ "links": {
+ "self": "/people/847710731"
+ }
+ },
+ {
+ "id": "262742470",
+ "type": "people",
+ "attributes": {
+ "title": "Fred Smith-Jones"
+ },
+ "links": {
+ "self": "/people/262742470"
+ }
+ },
+ {
+ "id": "1039986468",
+ "type": "people",
+ "attributes": {
+ "title": "Aaron Spiggle"
+ },
+ "links": {
+ "self": "/people/1039986468"
+ }
+ },
+ {
+ "id": "408848532",
+ "type": "people",
+ "attributes": {
+ "title": "Free Spirit"
+ },
+ "links": {
+ "self": "/people/408848532"
+ }
+ },
+ {
+ "id": "382405343",
+ "type": "people",
+ "attributes": {
+ "title": "Registered-User WantsToAccessManyThingsAndHasSomePermissions"
+ },
+ "links": {
+ "self": "/people/382405343"
+ }
+ },
+ {
+ "id": "528771254",
+ "type": "people",
+ "attributes": {
+ "title": "Firstname"
+ },
+ "links": {
+ "self": "/people/528771254"
+ }
+ },
+ {
+ "id": "272240831",
+ "type": "people",
+ "attributes": {
+ "title": "Lonely"
+ },
+ "links": {
+ "self": "/people/272240831"
+ }
+ },
+ {
+ "id": "872873870",
+ "type": "people",
+ "attributes": {
+ "title": "Modeller"
+ },
+ "links": {
+ "self": "/people/872873870"
+ }
+ },
+ {
+ "id": "171291580",
+ "type": "people",
+ "attributes": {
+ "title": "Userless"
+ },
+ "links": {
+ "self": "/people/171291580"
}
}
],
diff --git a/public/api/examples/personPatch.json b/public/api/examples/personPatch.json
index 875fbb4756..ae71c9fc67 100644
--- a/public/api/examples/personPatch.json
+++ b/public/api/examples/personPatch.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "118",
+ "id": "1039988364",
"type": "people",
"attributes": {
"first_name": "Patched",
diff --git a/public/api/examples/personPatchResponse.json b/public/api/examples/personPatchResponse.json
index fba5715a9c..e91b734a60 100644
--- a/public/api/examples/personPatchResponse.json
+++ b/public/api/examples/personPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "1039992249",
+ "id": "1039988364",
"type": "people",
"attributes": {
"avatar": null,
@@ -19,13 +19,13 @@
"Gromacs",
"Python"
],
- "login": "user204"
+ "login": "user3898"
},
"relationships": {
"projects": {
"data": [
{
- "id": "1022256840",
+ "id": "1022252441",
"type": "projects"
}
]
@@ -33,7 +33,7 @@
"institutions": {
"data": [
{
- "id": "980196784",
+ "id": "980192886",
"type": "institutions"
}
]
@@ -100,14 +100,14 @@
}
},
"links": {
- "self": "/people/1039992249"
+ "self": "/people/1039988364"
},
"meta": {
- "created": "2022-10-26T11:44:31.000Z",
- "modified": "2022-10-26T11:44:31.000Z",
+ "created": "2024-06-20T12:38:47.000Z",
+ "modified": "2024-06-20T12:38:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "7acec590-3751-013b-356e-000c29a94011"
+ "uuid": "f66eeec0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/personPost.json b/public/api/examples/personPost.json
index efe5420289..6b0b69f83f 100644
--- a/public/api/examples/personPost.json
+++ b/public/api/examples/personPost.json
@@ -3,8 +3,8 @@
"type": "people",
"attributes": {
"first_name": "Post",
- "last_name": "Person104",
- "email": "maxtest104@test.com",
+ "last_name": "Person1039988350",
+ "email": "maxtest1039988350@test.com",
"description": "A person with all possible details",
"web_page": "http://www.website.com",
"orcid": "https://orcid.org/0000-0001-9842-9718",
diff --git a/public/api/examples/personPostResponse.json b/public/api/examples/personPostResponse.json
index 6909a2a89c..b79574e978 100644
--- a/public/api/examples/personPostResponse.json
+++ b/public/api/examples/personPostResponse.json
@@ -1,15 +1,15 @@
{
"data": {
- "id": "1039992235",
+ "id": "1039988350",
"type": "people",
"attributes": {
"avatar": null,
- "title": "Post Person1039992235",
+ "title": "Post Person1039988350",
"description": "A person with all possible details",
"first_name": "Post",
- "last_name": "Person1039992235",
+ "last_name": "Person1039988350",
"orcid": "https://orcid.org/0000-0001-9842-9718",
- "mbox_sha1sum": "f1294d2fd50702dcee3a9686b360667d32eca0ad",
+ "mbox_sha1sum": "75b8b8d23704f980c8dd9a965e036a388033383c",
"expertise": [
"modeling",
"programming"
@@ -94,14 +94,14 @@
}
},
"links": {
- "self": "/people/1039992235"
+ "self": "/people/1039988350"
},
"meta": {
- "created": "2022-10-26T11:44:29.000Z",
- "modified": "2022-10-26T11:44:29.000Z",
+ "created": "2024-06-20T12:38:44.000Z",
+ "modified": "2024-06-20T12:38:44.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "792fedf0-3751-013b-356e-000c29a94011"
+ "uuid": "f478fc80-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/personResponse.json b/public/api/examples/personResponse.json
index e09a0d8fc3..2cb01bb8e3 100644
--- a/public/api/examples/personResponse.json
+++ b/public/api/examples/personResponse.json
@@ -1,9 +1,9 @@
{
"data": {
- "id": "1039992246",
+ "id": "1039988361",
"type": "people",
"attributes": {
- "avatar": "/people/1039992246/avatars/45",
+ "avatar": "/people/1039988361/avatars/37",
"title": "Maximilian Maxi-Mum",
"description": "A person with all possible details",
"first_name": "Maximilian",
@@ -23,7 +23,7 @@
"projects": {
"data": [
{
- "id": "1022256835",
+ "id": "1022252437",
"type": "projects"
}
]
@@ -31,7 +31,7 @@
"institutions": {
"data": [
{
- "id": "980196780",
+ "id": "980192883",
"type": "institutions"
}
]
@@ -39,7 +39,7 @@
"investigations": {
"data": [
{
- "id": "973655440",
+ "id": "973655106",
"type": "investigations"
}
]
@@ -47,7 +47,7 @@
"studies": {
"data": [
{
- "id": "1060385452",
+ "id": "1060385137",
"type": "studies"
}
]
@@ -55,7 +55,7 @@
"assays": {
"data": [
{
- "id": "1035387171",
+ "id": "1035386882",
"type": "assays"
}
]
@@ -63,7 +63,7 @@
"data_files": {
"data": [
{
- "id": "883654679",
+ "id": "883654361",
"type": "data_files"
}
]
@@ -71,7 +71,7 @@
"models": {
"data": [
{
- "id": "1004285720",
+ "id": "1004285589",
"type": "models"
}
]
@@ -79,7 +79,7 @@
"sops": {
"data": [
{
- "id": "1055250745",
+ "id": "1055250491",
"type": "sops"
}
]
@@ -87,7 +87,7 @@
"publications": {
"data": [
{
- "id": "165",
+ "id": "303",
"type": "publications"
}
]
@@ -95,7 +95,7 @@
"presentations": {
"data": [
{
- "id": "78",
+ "id": "118",
"type": "presentations"
}
]
@@ -103,7 +103,7 @@
"events": {
"data": [
{
- "id": "1025618735",
+ "id": "1025618752",
"type": "events"
}
]
@@ -111,7 +111,7 @@
"documents": {
"data": [
{
- "id": "211",
+ "id": "267",
"type": "documents"
}
]
@@ -119,7 +119,7 @@
"workflows": {
"data": [
{
- "id": "218",
+ "id": "183",
"type": "workflows"
}
]
@@ -127,21 +127,21 @@
"collections": {
"data": [
{
- "id": "29",
+ "id": "103",
"type": "collections"
}
]
}
},
"links": {
- "self": "/people/1039992246"
+ "self": "/people/1039988361"
},
"meta": {
- "created": "2022-10-26T11:44:30.000Z",
- "modified": "2022-10-26T11:44:30.000Z",
+ "created": "2024-06-20T12:38:46.000Z",
+ "modified": "2024-06-20T12:38:46.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "7a421450-3751-013b-356e-000c29a94011"
+ "uuid": "f5c5aed0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/presentationPatch.json b/public/api/examples/presentationPatch.json
index de26625606..813c00464d 100644
--- a/public/api/examples/presentationPatch.json
+++ b/public/api/examples/presentationPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "presentations",
- "id": "12",
+ "id": "85",
"attributes": {
"title": "A Maximally Patched Presentation",
"description": "Presenting the research about the thing",
@@ -17,7 +17,7 @@
"permissions": [
{
"resource": {
- "id": "289",
+ "id": "1022250826",
"type": "projects"
},
"access": "edit"
@@ -29,7 +29,7 @@
"creators": {
"data": [
{
- "id": "278",
+ "id": "1039986716",
"type": "people"
}
]
@@ -37,7 +37,7 @@
"projects": {
"data": [
{
- "id": "289",
+ "id": "1022250826",
"type": "projects"
}
]
@@ -45,7 +45,7 @@
"publications": {
"data": [
{
- "id": "18",
+ "id": "157",
"type": "publications"
}
]
@@ -53,7 +53,7 @@
"events": {
"data": [
{
- "id": "10",
+ "id": "1025618684",
"type": "events"
}
]
@@ -61,7 +61,7 @@
"workflows": {
"data": [
{
- "id": "20",
+ "id": "99",
"type": "workflows"
}
]
diff --git a/public/api/examples/presentationPatchResponse.json b/public/api/examples/presentationPatchResponse.json
index c03539c2da..0d0d7d741a 100644
--- a/public/api/examples/presentationPatchResponse.json
+++ b/public/api/examples/presentationPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "12",
+ "id": "85",
"type": "presentations",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "289",
+ "id": "1022250826",
"type": "projects"
},
"access": "edit"
@@ -31,30 +31,30 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/presentations/12?version=1"
+ "url": "http://localhost:3000/presentations/85?version=1"
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:13:04.000Z",
- "updated_at": "2022-06-07T14:13:04.000Z",
+ "created_at": "2024-06-20T12:34:57.000Z",
+ "updated_at": "2024-06-20T12:34:57.000Z",
"content_blobs": [
{
"original_filename": "test.pdf",
"url": null,
- "md5sum": "a922da633a99ac8d8a969fee40348450",
- "sha1sum": "0ca4731e79fbd6525770dcf68e62a35a4581ebd5",
+ "md5sum": "df30f9f1a71be8ee7532b1fb1e917a96",
+ "sha1sum": "72cfabbd17e39311f4bc9e22a09f965bd16cd0c6",
"content_type": "application/pdf",
- "link": "http://localhost:3000/presentations/12/content_blobs/121",
- "size": 9
+ "link": "http://localhost:3000/presentations/85/content_blobs/1050452605",
+ "size": 10
}
],
"creators": [
{
- "profile": "/people/278",
+ "profile": "/people/1039986716",
"family_name": "Last",
- "given_name": "Person228",
- "affiliation": "An Institution: 280",
+ "given_name": "Person1922",
+ "affiliation": "An Institution: 2357",
"orcid": null
}
],
@@ -64,7 +64,7 @@
"creators": {
"data": [
{
- "id": "278",
+ "id": "1039986716",
"type": "people"
}
]
@@ -72,7 +72,7 @@
"submitter": {
"data": [
{
- "id": "277",
+ "id": "1039986715",
"type": "people"
}
]
@@ -80,11 +80,11 @@
"people": {
"data": [
{
- "id": "277",
+ "id": "1039986715",
"type": "people"
},
{
- "id": "278",
+ "id": "1039986716",
"type": "people"
}
]
@@ -92,7 +92,7 @@
"projects": {
"data": [
{
- "id": "289",
+ "id": "1022250826",
"type": "projects"
}
]
@@ -115,7 +115,7 @@
"publications": {
"data": [
{
- "id": "18",
+ "id": "157",
"type": "publications"
}
]
@@ -123,7 +123,7 @@
"events": {
"data": [
{
- "id": "10",
+ "id": "1025618684",
"type": "events"
}
]
@@ -131,21 +131,21 @@
"workflows": {
"data": [
{
- "id": "20",
+ "id": "99",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/presentations/12?version=1"
+ "self": "/presentations/85?version=1"
},
"meta": {
- "created": "2022-06-07T14:13:04.000Z",
- "modified": "2022-06-07T14:13:04.000Z",
+ "created": "2024-06-20T12:34:57.000Z",
+ "modified": "2024-06-20T12:34:57.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "deaca630-c899-013a-0f7e-0a81884ed284"
+ "uuid": "6d527fa0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/presentationPost.json b/public/api/examples/presentationPost.json
index 7a8e609d4d..49eac7c0f2 100644
--- a/public/api/examples/presentationPost.json
+++ b/public/api/examples/presentationPost.json
@@ -21,7 +21,7 @@
"permissions": [
{
"resource": {
- "id": "254",
+ "id": "1022250791",
"type": "projects"
},
"access": "edit"
@@ -33,7 +33,7 @@
"creators": {
"data": [
{
- "id": "239",
+ "id": "1039986677",
"type": "people"
}
]
@@ -41,7 +41,7 @@
"projects": {
"data": [
{
- "id": "254",
+ "id": "1022250791",
"type": "projects"
}
]
@@ -49,7 +49,7 @@
"publications": {
"data": [
{
- "id": "13",
+ "id": "152",
"type": "publications"
}
]
@@ -57,7 +57,7 @@
"events": {
"data": [
{
- "id": "5",
+ "id": "1025618679",
"type": "events"
}
]
@@ -65,7 +65,7 @@
"workflows": {
"data": [
{
- "id": "15",
+ "id": "94",
"type": "workflows"
}
]
diff --git a/public/api/examples/presentationPostResponse.json b/public/api/examples/presentationPostResponse.json
index 0e439ae7a2..265daf5e49 100644
--- a/public/api/examples/presentationPostResponse.json
+++ b/public/api/examples/presentationPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "6",
+ "id": "79",
"type": "presentations",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "254",
+ "id": "1022250791",
"type": "projects"
},
"access": "edit"
@@ -30,13 +30,13 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/presentations/6?version=1"
+ "url": "http://localhost:3000/presentations/79?version=1"
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:12:59.000Z",
- "updated_at": "2022-06-07T14:12:59.000Z",
+ "created_at": "2024-06-20T12:34:53.000Z",
+ "updated_at": "2024-06-20T12:34:53.000Z",
"content_blobs": [
{
"original_filename": "a_pdf_file.pdf",
@@ -44,16 +44,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/presentations/6/content_blobs/109",
+ "link": "http://localhost:3000/presentations/79/content_blobs/1050452595",
"size": null
}
],
"creators": [
{
- "profile": "/people/239",
+ "profile": "/people/1039986677",
"family_name": "Last",
- "given_name": "Person194",
- "affiliation": "An Institution: 241",
+ "given_name": "Person1888",
+ "affiliation": "An Institution: 2318",
"orcid": null
}
],
@@ -63,7 +63,7 @@
"creators": {
"data": [
{
- "id": "239",
+ "id": "1039986677",
"type": "people"
}
]
@@ -71,7 +71,7 @@
"submitter": {
"data": [
{
- "id": "238",
+ "id": "1039986676",
"type": "people"
}
]
@@ -79,11 +79,11 @@
"people": {
"data": [
{
- "id": "238",
+ "id": "1039986676",
"type": "people"
},
{
- "id": "239",
+ "id": "1039986677",
"type": "people"
}
]
@@ -91,7 +91,7 @@
"projects": {
"data": [
{
- "id": "254",
+ "id": "1022250791",
"type": "projects"
}
]
@@ -114,7 +114,7 @@
"publications": {
"data": [
{
- "id": "13",
+ "id": "152",
"type": "publications"
}
]
@@ -122,7 +122,7 @@
"events": {
"data": [
{
- "id": "5",
+ "id": "1025618679",
"type": "events"
}
]
@@ -130,21 +130,21 @@
"workflows": {
"data": [
{
- "id": "15",
+ "id": "94",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/presentations/6?version=1"
+ "self": "/presentations/79?version=1"
},
"meta": {
- "created": "2022-06-07T14:12:59.000Z",
- "modified": "2022-06-07T14:12:59.000Z",
+ "created": "2024-06-20T12:34:53.000Z",
+ "modified": "2024-06-20T12:34:53.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "dbeae7a0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "6af879c0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/presentationResponse.json b/public/api/examples/presentationResponse.json
index c540985606..e02101f104 100644
--- a/public/api/examples/presentationResponse.json
+++ b/public/api/examples/presentationResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "11",
+ "id": "84",
"type": "presentations",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "18",
+ "id": "167",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,13 +31,13 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/presentations/11?version=1"
+ "url": "http://localhost:3000/presentations/84?version=1"
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:13:03.000Z",
- "updated_at": "2022-06-07T14:13:03.000Z",
+ "created_at": "2024-06-20T12:34:56.000Z",
+ "updated_at": "2024-06-20T12:34:56.000Z",
"content_blobs": [
{
"original_filename": "test.pdf",
@@ -45,13 +45,13 @@
"md5sum": "726de0a3f94d65056b909b9736e10349",
"sha1sum": "fbcc0dee4b5415de4c82ef5b137d8231fec1331b",
"content_type": "application/pdf",
- "link": "http://localhost:3000/presentations/11/content_blobs/120",
+ "link": "http://localhost:3000/presentations/84/content_blobs/1050452604",
"size": 8
}
],
"creators": [
{
- "profile": "/people/274",
+ "profile": "/people/1039986712",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -64,7 +64,7 @@
"creators": {
"data": [
{
- "id": "274",
+ "id": "1039986712",
"type": "people"
}
]
@@ -72,7 +72,7 @@
"submitter": {
"data": [
{
- "id": "275",
+ "id": "1039986713",
"type": "people"
}
]
@@ -80,11 +80,11 @@
"people": {
"data": [
{
- "id": "274",
+ "id": "1039986712",
"type": "people"
},
{
- "id": "275",
+ "id": "1039986713",
"type": "people"
}
]
@@ -92,7 +92,7 @@
"projects": {
"data": [
{
- "id": "287",
+ "id": "1022250824",
"type": "projects"
}
]
@@ -100,7 +100,7 @@
"investigations": {
"data": [
{
- "id": "40",
+ "id": "973654808",
"type": "investigations"
}
]
@@ -108,7 +108,7 @@
"studies": {
"data": [
{
- "id": "38",
+ "id": "1060384866",
"type": "studies"
}
]
@@ -116,7 +116,7 @@
"assays": {
"data": [
{
- "id": "36",
+ "id": "1035386654",
"type": "assays"
}
]
@@ -124,7 +124,7 @@
"publications": {
"data": [
{
- "id": "17",
+ "id": "156",
"type": "publications"
}
]
@@ -132,7 +132,7 @@
"events": {
"data": [
{
- "id": "9",
+ "id": "1025618683",
"type": "events"
}
]
@@ -140,21 +140,21 @@
"workflows": {
"data": [
{
- "id": "19",
+ "id": "98",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/presentations/11?version=1"
+ "self": "/presentations/84?version=1"
},
"meta": {
- "created": "2022-06-07T14:13:03.000Z",
- "modified": "2022-06-07T14:13:03.000Z",
+ "created": "2024-06-20T12:34:56.000Z",
+ "modified": "2024-06-20T12:34:56.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "de40d2f0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "6cf09130-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/programmePatch.json b/public/api/examples/programmePatch.json
index 07b41fd5c0..f60ff03dae 100644
--- a/public/api/examples/programmePatch.json
+++ b/public/api/examples/programmePatch.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "1296",
+ "id": "42",
"type": "programmes",
"attributes": {
"title": "Changed title",
@@ -15,7 +15,7 @@
"projects": {
"data": [
{
- "id": "7653",
+ "id": "364",
"type": "projects"
}
]
@@ -23,7 +23,7 @@
"administrators": {
"data": [
{
- "id": "5588",
+ "id": "301",
"type": "people"
}
]
@@ -31,7 +31,7 @@
"people": {
"data": [
{
- "id": "5588",
+ "id": "301",
"type": "people"
}
]
diff --git a/public/api/examples/programmePatchResponse.json b/public/api/examples/programmePatchResponse.json
index 5e6383467e..7edcc269d0 100644
--- a/public/api/examples/programmePatchResponse.json
+++ b/public/api/examples/programmePatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "1296",
+ "id": "42",
"type": "programmes",
"attributes": {
"discussion_links": [
@@ -19,7 +19,7 @@
"administrators": {
"data": [
{
- "id": "5588",
+ "id": "301",
"type": "people"
}
]
@@ -27,7 +27,7 @@
"people": {
"data": [
{
- "id": "5588",
+ "id": "301",
"type": "people"
}
]
@@ -35,7 +35,7 @@
"projects": {
"data": [
{
- "id": "7653",
+ "id": "364",
"type": "projects"
}
]
@@ -107,14 +107,14 @@
}
},
"links": {
- "self": "/programmes/1296"
+ "self": "/programmes/42"
},
"meta": {
- "created": "2023-03-28T14:57:01.000Z",
- "modified": "2023-03-28T14:57:01.000Z",
+ "created": "2024-06-20T12:29:32.000Z",
+ "modified": "2024-06-20T12:29:32.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "b8016460-afa6-013b-c76a-2c91a17e7bb9"
+ "uuid": "abc65c50-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/programmePost.json b/public/api/examples/programmePost.json
index a16f03954c..b18ae32ebe 100644
--- a/public/api/examples/programmePost.json
+++ b/public/api/examples/programmePost.json
@@ -15,7 +15,7 @@
"projects": {
"data": [
{
- "id": "7564",
+ "id": "275",
"type": "projects"
}
]
@@ -23,11 +23,11 @@
"administrators": {
"data": [
{
- "id": "5510",
+ "id": "223",
"type": "people"
},
{
- "id": "5511",
+ "id": "224",
"type": "people"
}
]
diff --git a/public/api/examples/programmePostResponse.json b/public/api/examples/programmePostResponse.json
index e413d7b659..e26d1d523e 100644
--- a/public/api/examples/programmePostResponse.json
+++ b/public/api/examples/programmePostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "1288",
+ "id": "34",
"type": "programmes",
"attributes": {
"discussion_links": [
@@ -20,11 +20,11 @@
"administrators": {
"data": [
{
- "id": "5510",
+ "id": "223",
"type": "people"
},
{
- "id": "5511",
+ "id": "224",
"type": "people"
}
]
@@ -32,11 +32,11 @@
"people": {
"data": [
{
- "id": "5510",
+ "id": "223",
"type": "people"
},
{
- "id": "5511",
+ "id": "224",
"type": "people"
}
]
@@ -44,7 +44,7 @@
"projects": {
"data": [
{
- "id": "7564",
+ "id": "275",
"type": "projects"
}
]
@@ -116,14 +116,14 @@
}
},
"links": {
- "self": "/programmes/1288"
+ "self": "/programmes/34"
},
"meta": {
- "created": "2023-03-28T14:56:53.000Z",
- "modified": "2023-03-28T14:56:53.000Z",
+ "created": "2024-06-20T12:29:22.000Z",
+ "modified": "2024-06-20T12:29:22.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "b37f0780-afa6-013b-c76a-2c91a17e7bb9"
+ "uuid": "a56119c0-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/programmeResponse.json b/public/api/examples/programmeResponse.json
index 4410e43f65..021fd757e1 100644
--- a/public/api/examples/programmeResponse.json
+++ b/public/api/examples/programmeResponse.json
@@ -1,11 +1,11 @@
{
"data": {
- "id": "1295",
+ "id": "41",
"type": "programmes",
"attributes": {
"discussion_links": [
{
- "id": "410",
+ "id": "20",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -23,7 +23,7 @@
"administrators": {
"data": [
{
- "id": "5585",
+ "id": "298",
"type": "people"
}
]
@@ -31,11 +31,11 @@
"people": {
"data": [
{
- "id": "5584",
+ "id": "297",
"type": "people"
},
{
- "id": "5585",
+ "id": "298",
"type": "people"
}
]
@@ -43,7 +43,7 @@
"projects": {
"data": [
{
- "id": "7648",
+ "id": "359",
"type": "projects"
}
]
@@ -51,7 +51,7 @@
"institutions": {
"data": [
{
- "id": "5584",
+ "id": "297",
"type": "institutions"
}
]
@@ -59,7 +59,7 @@
"investigations": {
"data": [
{
- "id": "656",
+ "id": "32",
"type": "investigations"
}
]
@@ -67,7 +67,7 @@
"studies": {
"data": [
{
- "id": "574",
+ "id": "28",
"type": "studies"
}
]
@@ -75,7 +75,7 @@
"assays": {
"data": [
{
- "id": "492",
+ "id": "24",
"type": "assays"
}
]
@@ -83,7 +83,7 @@
"data_files": {
"data": [
{
- "id": "164",
+ "id": "16",
"type": "data_files"
}
]
@@ -91,7 +91,7 @@
"models": {
"data": [
{
- "id": "656",
+ "id": "19",
"type": "models"
}
]
@@ -99,7 +99,7 @@
"sops": {
"data": [
{
- "id": "164",
+ "id": "16",
"type": "sops"
}
]
@@ -107,7 +107,7 @@
"publications": {
"data": [
{
- "id": "164",
+ "id": "8",
"type": "publications"
}
]
@@ -115,7 +115,7 @@
"presentations": {
"data": [
{
- "id": "82",
+ "id": "11",
"type": "presentations"
}
]
@@ -123,7 +123,7 @@
"events": {
"data": [
{
- "id": "82",
+ "id": "11",
"type": "events"
}
]
@@ -131,7 +131,7 @@
"documents": {
"data": [
{
- "id": "164",
+ "id": "8",
"type": "documents"
}
]
@@ -139,7 +139,7 @@
"workflows": {
"data": [
{
- "id": "82",
+ "id": "4",
"type": "workflows"
}
]
@@ -151,14 +151,14 @@
}
},
"links": {
- "self": "/programmes/1295"
+ "self": "/programmes/41"
},
"meta": {
- "created": "2023-03-28T14:57:00.000Z",
- "modified": "2023-03-28T14:57:00.000Z",
+ "created": "2024-06-20T12:29:32.000Z",
+ "modified": "2024-06-20T12:29:32.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "b7d5d740-afa6-013b-c76a-2c91a17e7bb9"
+ "uuid": "ab8c34d0-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/programmesResponse.json b/public/api/examples/programmesResponse.json
index b6e1fe975a..b0b6a27252 100644
--- a/public/api/examples/programmesResponse.json
+++ b/public/api/examples/programmesResponse.json
@@ -1,33 +1,33 @@
{
"data": [
{
- "id": "1292",
+ "id": "38",
"type": "programmes",
"attributes": {
"title": "A Maximal Programme"
},
"links": {
- "self": "/programmes/1292"
+ "self": "/programmes/38"
}
},
{
- "id": "1291",
+ "id": "36",
"type": "programmes",
"attributes": {
- "title": "A Programme: 28"
+ "title": "A Minimal Programme"
},
"links": {
- "self": "/programmes/1291"
+ "self": "/programmes/36"
}
},
{
- "id": "1290",
+ "id": "37",
"type": "programmes",
"attributes": {
- "title": "A Minimal Programme"
+ "title": "A Programme: 28"
},
"links": {
- "self": "/programmes/1290"
+ "self": "/programmes/37"
}
}
],
diff --git a/public/api/examples/projectPatch.json b/public/api/examples/projectPatch.json
index eda94f5199..490fa1c426 100644
--- a/public/api/examples/projectPatch.json
+++ b/public/api/examples/projectPatch.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "15790",
+ "id": "646",
"type": "projects",
"attributes": {
"avatar": null,
@@ -14,21 +14,21 @@
"permissions": [
{
"resource": {
- "id": "13324",
+ "id": "513",
"type": "people"
},
"access": "manage"
},
{
"resource": {
- "id": "15790",
+ "id": "646",
"type": "projects"
},
"access": "download"
},
{
"resource": {
- "id": "13808",
+ "id": "540",
"type": "institutions"
},
"access": "view"
@@ -36,7 +36,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "2662",
+ "extended_metadata_type_id": "140",
"attribute_map": {
"dad": {
"first_name": "john",
@@ -73,7 +73,7 @@
"programmes": {
"data": [
{
- "id": "507",
+ "id": "71",
"type": "programmes"
}
]
@@ -81,7 +81,7 @@
"organisms": {
"data": [
{
- "id": "737",
+ "id": "33",
"type": "organisms"
}
]
diff --git a/public/api/examples/projectPatchResponse.json b/public/api/examples/projectPatchResponse.json
index b8b5bd3f66..91af4f3d71 100644
--- a/public/api/examples/projectPatchResponse.json
+++ b/public/api/examples/projectPatchResponse.json
@@ -1,13 +1,13 @@
{
"data": {
- "id": "15790",
+ "id": "646",
"type": "projects",
"attributes": {
"discussion_links": [
],
"extended_attributes": {
- "extended_metadata_type_id": "2662",
+ "extended_metadata_type_id": "140",
"attribute_map": {
"dad": {
"first_name": "john",
@@ -42,21 +42,21 @@
"permissions": [
{
"resource": {
- "id": "13324",
+ "id": "513",
"type": "people"
},
"access": "manage"
},
{
"resource": {
- "id": "15790",
+ "id": "646",
"type": "projects"
},
"access": "download"
},
{
"resource": {
- "id": "13808",
+ "id": "540",
"type": "institutions"
},
"access": "view"
@@ -102,7 +102,7 @@
"organisms": {
"data": [
{
- "id": "737",
+ "id": "33",
"type": "organisms"
}
]
@@ -125,7 +125,7 @@
"programmes": {
"data": [
{
- "id": "507",
+ "id": "71",
"type": "programmes"
}
]
@@ -202,14 +202,14 @@
}
},
"links": {
- "self": "/projects/15790"
+ "self": "/projects/646"
},
"meta": {
- "created": "2024-03-15T12:40:36.000Z",
- "modified": "2024-03-15T12:40:36.000Z",
+ "created": "2024-06-20T12:30:04.000Z",
+ "modified": "2024-06-20T12:30:04.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "253ae910-c4f7-013c-642b-7efdca78d793"
+ "uuid": "bea4ec10-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/projectPost.json b/public/api/examples/projectPost.json
index 1b060335b3..318efb9717 100644
--- a/public/api/examples/projectPost.json
+++ b/public/api/examples/projectPost.json
@@ -13,21 +13,21 @@
"permissions": [
{
"resource": {
- "id": "13321",
+ "id": "440",
"type": "people"
},
"access": "manage"
},
{
"resource": {
- "id": "15784",
+ "id": "559",
"type": "projects"
},
"access": "download"
},
{
"resource": {
- "id": "13804",
+ "id": "464",
"type": "institutions"
},
"access": "view"
@@ -35,7 +35,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "2658",
+ "extended_metadata_type_id": "118",
"attribute_map": {
"dad": {
"first_name": "john",
@@ -72,7 +72,7 @@
"programmes": {
"data": [
{
- "id": "506",
+ "id": "66",
"type": "programmes"
}
]
@@ -80,7 +80,7 @@
"organisms": {
"data": [
{
- "id": "736",
+ "id": "28",
"type": "organisms"
}
]
diff --git a/public/api/examples/projectPostResponse.json b/public/api/examples/projectPostResponse.json
index e6ccd4e633..0b16b767d4 100644
--- a/public/api/examples/projectPostResponse.json
+++ b/public/api/examples/projectPostResponse.json
@@ -1,13 +1,13 @@
{
"data": {
- "id": "15786",
+ "id": "561",
"type": "projects",
"attributes": {
"discussion_links": [
],
"extended_attributes": {
- "extended_metadata_type_id": "2658",
+ "extended_metadata_type_id": "118",
"attribute_map": {
"dad": {
"first_name": "john",
@@ -42,21 +42,21 @@
"permissions": [
{
"resource": {
- "id": "13321",
+ "id": "440",
"type": "people"
},
"access": "manage"
},
{
"resource": {
- "id": "15784",
+ "id": "559",
"type": "projects"
},
"access": "download"
},
{
"resource": {
- "id": "13804",
+ "id": "464",
"type": "institutions"
},
"access": "view"
@@ -102,7 +102,7 @@
"organisms": {
"data": [
{
- "id": "736",
+ "id": "28",
"type": "organisms"
}
]
@@ -125,7 +125,7 @@
"programmes": {
"data": [
{
- "id": "506",
+ "id": "66",
"type": "programmes"
}
]
@@ -202,14 +202,14 @@
}
},
"links": {
- "self": "/projects/15786"
+ "self": "/projects/561"
},
"meta": {
- "created": "2024-03-15T12:40:36.000Z",
- "modified": "2024-03-15T12:40:36.000Z",
+ "created": "2024-06-20T12:29:54.000Z",
+ "modified": "2024-06-20T12:29:54.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "2520d160-c4f7-013c-642b-7efdca78d793"
+ "uuid": "b87dd8d0-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/projectResponse.json b/public/api/examples/projectResponse.json
index 28df2bde2a..2d52dba2da 100644
--- a/public/api/examples/projectResponse.json
+++ b/public/api/examples/projectResponse.json
@@ -1,17 +1,17 @@
{
"data": {
- "id": "14075",
+ "id": "642",
"type": "projects",
"attributes": {
"discussion_links": [
{
- "id": "639",
+ "id": "36",
"label": "Slack",
"url": "http://www.slack.com/"
}
],
"extended_attributes": {
- "extended_metadata_type_id": "1824",
+ "extended_metadata_type_id": "135",
"attribute_map": {
"dad": {
"first_name": "john",
@@ -33,7 +33,7 @@
]
}
},
- "avatar": "/projects/14075/avatars/70",
+ "avatar": "/projects/642/avatars/8",
"title": "A Maximal Project",
"description": "A Taverna project",
"web_page": "http://www.taverna.org.uk",
@@ -49,8 +49,8 @@
},
"members": [
{
- "person_id": "12085",
- "institution_id": "12386"
+ "person_id": "510",
+ "institution_id": "536"
}
],
"use_default_policy": true,
@@ -99,7 +99,7 @@
"people": {
"data": [
{
- "id": "12085",
+ "id": "510",
"type": "people"
}
]
@@ -107,7 +107,7 @@
"institutions": {
"data": [
{
- "id": "12386",
+ "id": "536",
"type": "institutions"
}
]
@@ -115,7 +115,7 @@
"programmes": {
"data": [
{
- "id": "314",
+ "id": "70",
"type": "programmes"
}
]
@@ -123,7 +123,7 @@
"investigations": {
"data": [
{
- "id": "4396",
+ "id": "64",
"type": "investigations"
}
]
@@ -131,7 +131,7 @@
"studies": {
"data": [
{
- "id": "3327",
+ "id": "56",
"type": "studies"
}
]
@@ -139,7 +139,7 @@
"assays": {
"data": [
{
- "id": "1696",
+ "id": "48",
"type": "assays"
}
]
@@ -147,7 +147,7 @@
"data_files": {
"data": [
{
- "id": "456",
+ "id": "24",
"type": "data_files"
}
]
@@ -165,7 +165,7 @@
"models": {
"data": [
{
- "id": "611",
+ "id": "31",
"type": "models"
}
]
@@ -173,7 +173,7 @@
"sops": {
"data": [
{
- "id": "438",
+ "id": "24",
"type": "sops"
}
]
@@ -181,7 +181,7 @@
"publications": {
"data": [
{
- "id": "1597",
+ "id": "16",
"type": "publications"
}
]
@@ -189,7 +189,7 @@
"presentations": {
"data": [
{
- "id": "155",
+ "id": "15",
"type": "presentations"
}
]
@@ -197,7 +197,7 @@
"events": {
"data": [
{
- "id": "184",
+ "id": "15",
"type": "events"
}
]
@@ -205,7 +205,7 @@
"documents": {
"data": [
{
- "id": "508",
+ "id": "16",
"type": "documents"
}
]
@@ -213,7 +213,7 @@
"workflows": {
"data": [
{
- "id": "244",
+ "id": "8",
"type": "workflows"
}
]
@@ -221,21 +221,21 @@
"collections": {
"data": [
{
- "id": "122",
+ "id": "8",
"type": "collections"
}
]
}
},
"links": {
- "self": "/projects/14075"
+ "self": "/projects/642"
},
"meta": {
- "created": "2024-03-15T12:19:36.000Z",
- "modified": "2024-03-15T12:19:36.000Z",
+ "created": "2024-06-20T12:30:03.000Z",
+ "modified": "2024-06-20T12:30:04.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "3627d4b0-c4f4-013c-641e-7efdca78d793"
+ "uuid": "be5ee920-112e-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/projectsResponse.json b/public/api/examples/projectsResponse.json
index 6066b016fd..acba601509 100644
--- a/public/api/examples/projectsResponse.json
+++ b/public/api/examples/projectsResponse.json
@@ -1,363 +1,363 @@
{
"data": [
{
- "id": "13608",
+ "id": "599",
"type": "projects",
"attributes": {
- "title": "A Project: -222"
+ "title": "A Project: -587"
},
"links": {
- "self": "/projects/13608"
+ "self": "/projects/599"
}
},
{
- "id": "13609",
+ "id": "600",
"type": "projects",
"attributes": {
- "title": "A Project: -223"
+ "title": "A Project: -588"
},
"links": {
- "self": "/projects/13609"
+ "self": "/projects/600"
}
},
{
- "id": "13610",
+ "id": "601",
"type": "projects",
"attributes": {
- "title": "A Project: -224"
+ "title": "A Project: -589"
},
"links": {
- "self": "/projects/13610"
+ "self": "/projects/601"
}
},
{
- "id": "13611",
+ "id": "602",
"type": "projects",
"attributes": {
- "title": "A Project: -225"
+ "title": "A Maximal Project"
},
"links": {
- "self": "/projects/13611"
+ "self": "/projects/602"
}
},
{
- "id": "13612",
+ "id": "591",
"type": "projects",
"attributes": {
- "title": "A Project: -226"
+ "title": "A Project: -579"
},
"links": {
- "self": "/projects/13612"
+ "self": "/projects/591"
}
},
{
- "id": "13613",
+ "id": "592",
"type": "projects",
"attributes": {
- "title": "A Project: -227"
+ "title": "A Project: -580"
},
"links": {
- "self": "/projects/13613"
+ "self": "/projects/592"
}
},
{
- "id": "13614",
+ "id": "593",
"type": "projects",
"attributes": {
- "title": "A Project: -228"
+ "title": "A Project: -581"
},
"links": {
- "self": "/projects/13614"
+ "self": "/projects/593"
}
},
{
- "id": "13615",
+ "id": "594",
"type": "projects",
"attributes": {
- "title": "A Maximal Project"
+ "title": "A Project: -582"
},
"links": {
- "self": "/projects/13615"
+ "self": "/projects/594"
}
},
{
- "id": "13594",
+ "id": "595",
"type": "projects",
"attributes": {
- "title": "A Project: -208"
+ "title": "A Project: -583"
},
"links": {
- "self": "/projects/13594"
+ "self": "/projects/595"
}
},
{
- "id": "13595",
+ "id": "596",
"type": "projects",
"attributes": {
- "title": "A Project: -209"
+ "title": "A Project: -584"
},
"links": {
- "self": "/projects/13595"
+ "self": "/projects/596"
}
},
{
- "id": "13596",
+ "id": "597",
"type": "projects",
"attributes": {
- "title": "A Project: -210"
+ "title": "A Project: -585"
},
"links": {
- "self": "/projects/13596"
+ "self": "/projects/597"
}
},
{
- "id": "13597",
+ "id": "598",
"type": "projects",
"attributes": {
- "title": "A Project: -211"
+ "title": "A Project: -586"
},
"links": {
- "self": "/projects/13597"
+ "self": "/projects/598"
}
},
{
- "id": "13598",
+ "id": "583",
"type": "projects",
"attributes": {
- "title": "A Project: -212"
+ "title": "A Project: -571"
},
"links": {
- "self": "/projects/13598"
+ "self": "/projects/583"
}
},
{
- "id": "13599",
+ "id": "584",
"type": "projects",
"attributes": {
- "title": "A Project: -213"
+ "title": "A Project: -572"
},
"links": {
- "self": "/projects/13599"
+ "self": "/projects/584"
}
},
{
- "id": "13600",
+ "id": "585",
"type": "projects",
"attributes": {
- "title": "A Project: -214"
+ "title": "A Project: -573"
},
"links": {
- "self": "/projects/13600"
+ "self": "/projects/585"
}
},
{
- "id": "13601",
+ "id": "586",
"type": "projects",
"attributes": {
- "title": "A Project: -215"
+ "title": "A Project: -574"
},
"links": {
- "self": "/projects/13601"
+ "self": "/projects/586"
}
},
{
- "id": "13602",
+ "id": "587",
"type": "projects",
"attributes": {
- "title": "A Project: -216"
+ "title": "A Project: -575"
},
"links": {
- "self": "/projects/13602"
+ "self": "/projects/587"
}
},
{
- "id": "13603",
+ "id": "588",
"type": "projects",
"attributes": {
- "title": "A Project: -217"
+ "title": "A Project: -576"
},
"links": {
- "self": "/projects/13603"
+ "self": "/projects/588"
}
},
{
- "id": "13604",
+ "id": "589",
"type": "projects",
"attributes": {
- "title": "A Project: -218"
+ "title": "A Project: -577"
},
"links": {
- "self": "/projects/13604"
+ "self": "/projects/589"
}
},
{
- "id": "13605",
+ "id": "590",
"type": "projects",
"attributes": {
- "title": "A Project: -219"
+ "title": "A Project: -578"
},
"links": {
- "self": "/projects/13605"
+ "self": "/projects/590"
}
},
{
- "id": "13606",
+ "id": "577",
"type": "projects",
"attributes": {
- "title": "A Project: -220"
+ "title": "A Project: -565"
},
"links": {
- "self": "/projects/13606"
+ "self": "/projects/577"
}
},
{
- "id": "13607",
+ "id": "578",
"type": "projects",
"attributes": {
- "title": "A Project: -221"
+ "title": "A Project: -566"
},
"links": {
- "self": "/projects/13607"
+ "self": "/projects/578"
}
},
{
- "id": "13580",
+ "id": "579",
"type": "projects",
"attributes": {
- "title": "A Minimal Project"
+ "title": "A Project: -567"
},
"links": {
- "self": "/projects/13580"
+ "self": "/projects/579"
}
},
{
- "id": "13581",
+ "id": "580",
"type": "projects",
"attributes": {
- "title": "A Project: -195"
+ "title": "A Project: -568"
},
"links": {
- "self": "/projects/13581"
+ "self": "/projects/580"
}
},
{
- "id": "13582",
+ "id": "581",
"type": "projects",
"attributes": {
- "title": "A Project: -196"
+ "title": "A Project: -569"
},
"links": {
- "self": "/projects/13582"
+ "self": "/projects/581"
}
},
{
- "id": "13583",
+ "id": "582",
"type": "projects",
"attributes": {
- "title": "A Project: -197"
+ "title": "A Project: -570"
},
"links": {
- "self": "/projects/13583"
+ "self": "/projects/582"
}
},
{
- "id": "13584",
+ "id": "570",
"type": "projects",
"attributes": {
- "title": "A Project: -198"
+ "title": "A Project: -558"
},
"links": {
- "self": "/projects/13584"
+ "self": "/projects/570"
}
},
{
- "id": "13585",
+ "id": "571",
"type": "projects",
"attributes": {
- "title": "A Project: -199"
+ "title": "A Project: -559"
},
"links": {
- "self": "/projects/13585"
+ "self": "/projects/571"
}
},
{
- "id": "13586",
+ "id": "572",
"type": "projects",
"attributes": {
- "title": "A Project: -200"
+ "title": "A Project: -560"
},
"links": {
- "self": "/projects/13586"
+ "self": "/projects/572"
}
},
{
- "id": "13587",
+ "id": "573",
"type": "projects",
"attributes": {
- "title": "A Project: -201"
+ "title": "A Project: -561"
},
"links": {
- "self": "/projects/13587"
+ "self": "/projects/573"
}
},
{
- "id": "13588",
+ "id": "574",
"type": "projects",
"attributes": {
- "title": "A Project: -202"
+ "title": "A Project: -562"
},
"links": {
- "self": "/projects/13588"
+ "self": "/projects/574"
}
},
{
- "id": "13589",
+ "id": "575",
"type": "projects",
"attributes": {
- "title": "A Project: -203"
+ "title": "A Project: -563"
},
"links": {
- "self": "/projects/13589"
+ "self": "/projects/575"
}
},
{
- "id": "13590",
+ "id": "576",
"type": "projects",
"attributes": {
- "title": "A Project: -204"
+ "title": "A Project: -564"
},
"links": {
- "self": "/projects/13590"
+ "self": "/projects/576"
}
},
{
- "id": "13591",
+ "id": "567",
"type": "projects",
"attributes": {
- "title": "A Project: -205"
+ "title": "A Minimal Project"
},
"links": {
- "self": "/projects/13591"
+ "self": "/projects/567"
}
},
{
- "id": "13592",
+ "id": "568",
"type": "projects",
"attributes": {
- "title": "A Project: -206"
+ "title": "A Project: -556"
},
"links": {
- "self": "/projects/13592"
+ "self": "/projects/568"
}
},
{
- "id": "13593",
+ "id": "569",
"type": "projects",
"attributes": {
- "title": "A Project: -207"
+ "title": "A Project: -557"
},
"links": {
- "self": "/projects/13593"
+ "self": "/projects/569"
}
}
],
diff --git a/public/api/examples/publicationResponse.json b/public/api/examples/publicationResponse.json
index cfb88ca0d1..1892e73661 100644
--- a/public/api/examples/publicationResponse.json
+++ b/public/api/examples/publicationResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "14",
+ "id": "209",
"type": "publications",
"attributes": {
"policy": {
@@ -11,14 +11,14 @@
},
"discussion_links": [
{
- "id": "7",
+ "id": "190",
"label": "Slack",
"url": "http://www.slack.com/"
}
],
"misc_links": [
{
- "id": "8",
+ "id": "191",
"label": "A link",
"url": "http://www.slack.com/"
}
@@ -32,14 +32,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/publications/14?version=1",
+ "url": "http://localhost:3000/publications/209?version=1",
"doi": "10.5072/abcd"
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-09-09T15:53:35.000Z",
- "updated_at": "2022-09-09T15:53:35.000Z",
+ "created_at": "2024-06-20T12:36:11.000Z",
+ "updated_at": "2024-06-20T12:36:11.000Z",
"doi": "10.5072/abcd",
"content_blobs": [
{
@@ -48,7 +48,7 @@
"md5sum": "726de0a3f94d65056b909b9736e10349",
"sha1sum": "fbcc0dee4b5415de4c82ef5b137d8231fec1331b",
"content_type": "application/pdf",
- "link": "http://localhost:3000/publications/14/content_blobs/12",
+ "link": "http://localhost:3000/publications/209/content_blobs/1050452780",
"size": 8
}
],
@@ -81,7 +81,7 @@
"submitter": {
"data": [
{
- "id": "85",
+ "id": "1039987265",
"type": "people"
}
]
@@ -89,7 +89,7 @@
"people": {
"data": [
{
- "id": "85",
+ "id": "1039987265",
"type": "people"
}
]
@@ -97,7 +97,7 @@
"projects": {
"data": [
{
- "id": "92",
+ "id": "1022251332",
"type": "projects"
}
]
@@ -105,7 +105,7 @@
"investigations": {
"data": [
{
- "id": "12",
+ "id": "973654855",
"type": "investigations"
}
]
@@ -113,7 +113,7 @@
"studies": {
"data": [
{
- "id": "8",
+ "id": "1060384909",
"type": "studies"
}
]
@@ -121,7 +121,7 @@
"assays": {
"data": [
{
- "id": "4",
+ "id": "1035386693",
"type": "assays"
}
]
@@ -129,7 +129,7 @@
"data_files": {
"data": [
{
- "id": "4",
+ "id": "883654327",
"type": "data_files"
}
]
@@ -137,7 +137,7 @@
"models": {
"data": [
{
- "id": "12",
+ "id": "1004285499",
"type": "models"
}
]
@@ -145,7 +145,7 @@
"presentations": {
"data": [
{
- "id": "4",
+ "id": "89",
"type": "presentations"
}
]
@@ -153,7 +153,7 @@
"events": {
"data": [
{
- "id": "4",
+ "id": "1025618721",
"type": "events"
}
]
@@ -161,21 +161,21 @@
"workflows": {
"data": [
{
- "id": "4",
+ "id": "141",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/publications/14?version=1"
+ "self": "/publications/209?version=1"
},
"meta": {
- "created": "2022-09-09T15:53:34.000Z",
- "modified": "2022-09-09T15:53:34.000Z",
+ "created": "2024-06-20T12:36:11.000Z",
+ "modified": "2024-06-20T12:36:11.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "7c27c030-1285-013b-1218-0a81884ed284"
+ "uuid": "99a5ba60-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/publicationsResponse.json b/public/api/examples/publicationsResponse.json
index 5a29d0caaf..c4892fc37c 100644
--- a/public/api/examples/publicationsResponse.json
+++ b/public/api/examples/publicationsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "12",
+ "id": "207",
"type": "publications",
"attributes": {
"title": "A Maximal Publication"
},
"links": {
- "self": "/publications/12"
+ "self": "/publications/207"
}
},
{
- "id": "11",
+ "id": "206",
"type": "publications",
"attributes": {
"title": "A Minimal Publication"
},
"links": {
- "self": "/publications/11"
+ "self": "/publications/206"
}
}
],
diff --git a/public/api/examples/sampleControlledVocabPatch.json b/public/api/examples/sampleControlledVocabPatch.json
index da157689e0..04e7116770 100644
--- a/public/api/examples/sampleControlledVocabPatch.json
+++ b/public/api/examples/sampleControlledVocabPatch.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "18",
+ "id": "303",
"type": "sample_controlled_vocabs",
"attributes": {
"title": "new title",
@@ -10,7 +10,7 @@
"short_name": "new short name",
"sample_controlled_vocab_terms_attributes": [
{
- "id": "17",
+ "id": "931",
"label": "new term label",
"iri": "new iri",
"parent_iri": "new parent_iri"
diff --git a/public/api/examples/sampleControlledVocabPatchResponse.json b/public/api/examples/sampleControlledVocabPatchResponse.json
index b02456a5a8..1f843eb873 100644
--- a/public/api/examples/sampleControlledVocabPatchResponse.json
+++ b/public/api/examples/sampleControlledVocabPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "18",
+ "id": "303",
"type": "sample_controlled_vocabs",
"attributes": {
"title": "new title",
@@ -10,7 +10,7 @@
"short_name": "new short name",
"sample_controlled_vocab_terms_attributes": [
{
- "id": "17",
+ "id": "931",
"label": "new term label",
"iri": "new iri",
"parent_iri": "new parent_iri"
@@ -21,18 +21,18 @@
"sample_controlled_vocab_terms": {
"data": [
{
- "id": "17",
+ "id": "931",
"type": "sample_controlled_vocab_terms"
}
]
}
},
"links": {
- "self": "/sample_controlled_vocabs/18"
+ "self": "/sample_controlled_vocabs/303"
},
"meta": {
- "created": "2023-11-15T16:36:00.000Z",
- "modified": "2023-11-15T16:36:00.000Z",
+ "created": "2024-06-20T12:40:41.000Z",
+ "modified": "2024-06-20T12:40:41.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/sampleControlledVocabPostResponse.json b/public/api/examples/sampleControlledVocabPostResponse.json
index e7fccd07f4..06fbc17612 100644
--- a/public/api/examples/sampleControlledVocabPostResponse.json
+++ b/public/api/examples/sampleControlledVocabPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "17",
+ "id": "302",
"type": "sample_controlled_vocabs",
"attributes": {
"title": "New Vocab Max",
@@ -10,7 +10,7 @@
"short_name": "short_name",
"sample_controlled_vocab_terms_attributes": [
{
- "id": "16",
+ "id": "930",
"label": "organism",
"iri": "http://some_iri",
"parent_iri": "http://another_iri"
@@ -21,18 +21,18 @@
"sample_controlled_vocab_terms": {
"data": [
{
- "id": "16",
+ "id": "930",
"type": "sample_controlled_vocab_terms"
}
]
}
},
"links": {
- "self": "/sample_controlled_vocabs/17"
+ "self": "/sample_controlled_vocabs/302"
},
"meta": {
- "created": "2023-11-15T16:36:00.000Z",
- "modified": "2023-11-15T16:36:00.000Z",
+ "created": "2024-06-20T12:40:41.000Z",
+ "modified": "2024-06-20T12:40:41.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000"
}
diff --git a/public/api/examples/samplePatch.json b/public/api/examples/samplePatch.json
index 5f42388b27..7ace32b30f 100644
--- a/public/api/examples/samplePatch.json
+++ b/public/api/examples/samplePatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "samples",
- "id": "3",
+ "id": "193",
"attributes": {
"attribute_map": {
"full_name": "Fred Bloggs",
@@ -12,7 +12,10 @@
"apples": [
"Golden Delicious",
"Bramley"
- ]
+ ],
+ "weight": 3.7,
+ "age": 42,
+ "bool": true
},
"tags": [
@@ -22,7 +25,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022252320",
"type": "projects"
}
]
diff --git a/public/api/examples/samplePatchResponse.json b/public/api/examples/samplePatchResponse.json
index 435a958d0e..7085339e9f 100644
--- a/public/api/examples/samplePatchResponse.json
+++ b/public/api/examples/samplePatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "3",
+ "id": "193",
"type": "samples",
"attributes": {
"policy": {
@@ -16,8 +16,8 @@
"tags": [
],
- "created_at": "2023-03-06T15:24:15.832Z",
- "updated_at": "2023-03-06T15:24:15.975Z",
+ "created_at": "2024-06-20T12:38:32.000Z",
+ "updated_at": "2024-06-20T12:38:33.000Z",
"creators": [
],
@@ -34,16 +34,19 @@
],
"patients": [
{
- "id": 1,
+ "id": 191,
"type": "Sample",
"title": "Fred Bloggs"
},
{
- "id": 2,
+ "id": 192,
"type": "Sample",
"title": "Fred Bloggs"
}
- ]
+ ],
+ "weight": 3.7,
+ "age": 42,
+ "bool": true
}
},
"relationships": {
@@ -55,21 +58,21 @@
"submitter": {
"data": [
{
- "id": "2",
+ "id": "1039988241",
"type": "people"
}
]
},
"sample_type": {
"data": {
- "id": "2",
+ "id": "267",
"type": "sample_types"
}
},
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022252320",
"type": "projects"
}
]
@@ -97,21 +100,21 @@
"people": {
"data": [
{
- "id": "2",
+ "id": "1039988241",
"type": "people"
}
]
}
},
"links": {
- "self": "/samples/3"
+ "self": "/samples/193"
},
"meta": {
- "created": "2023-03-06T15:24:15.832Z",
- "modified": "2023-03-06T15:24:15.975Z",
+ "created": "2024-06-20T12:38:32.000Z",
+ "modified": "2024-06-20T12:38:33.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "e133a800-9e60-013b-15a0-0a81884ed284"
+ "uuid": "edb06c50-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/samplePost.json b/public/api/examples/samplePost.json
index 4c59e9a7c3..63a83558cc 100644
--- a/public/api/examples/samplePost.json
+++ b/public/api/examples/samplePost.json
@@ -11,7 +11,10 @@
"apples": [
"Golden Delicious",
"Granny Smith"
- ]
+ ],
+ "weight": 3.7,
+ "age": 42,
+ "bool": true
},
"tags": [
"tag1",
@@ -21,14 +24,14 @@
"relationships": {
"sample_type": {
"data": {
- "id": "2",
+ "id": "246",
"type": "sample_types"
}
},
"creators": {
"data": [
{
- "id": "2",
+ "id": "1039988186",
"type": "people"
}
]
@@ -36,7 +39,7 @@
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022252265",
"type": "projects"
}
]
@@ -44,7 +47,7 @@
"assays": {
"data": [
{
- "id": "2",
+ "id": "1035386870",
"type": "assays"
}
]
diff --git a/public/api/examples/samplePostResponse.json b/public/api/examples/samplePostResponse.json
index 85cde29b48..7e14681087 100644
--- a/public/api/examples/samplePostResponse.json
+++ b/public/api/examples/samplePostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "4",
+ "id": "177",
"type": "samples",
"attributes": {
"policy": {
@@ -17,14 +17,14 @@
"tag1",
"tag2"
],
- "created_at": "2023-03-06T15:24:11.241Z",
- "updated_at": "2023-03-06T15:24:11.220Z",
+ "created_at": "2024-06-20T12:38:26.000Z",
+ "updated_at": "2024-06-20T12:38:26.000Z",
"creators": [
{
- "profile": "/people/2",
+ "profile": "/people/1039988186",
"family_name": "Last",
- "given_name": "Person284",
- "affiliation": "An Institution: 309",
+ "given_name": "Person3114",
+ "affiliation": "An Institution: 3846",
"orcid": null
}
],
@@ -39,14 +39,17 @@
"Golden Delicious",
"Granny Smith"
],
- "patients": null
+ "patients": null,
+ "weight": 3.7,
+ "age": 42,
+ "bool": true
}
},
"relationships": {
"creators": {
"data": [
{
- "id": "2",
+ "id": "1039988186",
"type": "people"
}
]
@@ -54,21 +57,21 @@
"submitter": {
"data": [
{
- "id": "2",
+ "id": "1039988186",
"type": "people"
}
]
},
"sample_type": {
"data": {
- "id": "2",
+ "id": "246",
"type": "sample_types"
}
},
"projects": {
"data": [
{
- "id": "2",
+ "id": "1022252265",
"type": "projects"
}
]
@@ -81,7 +84,7 @@
"investigations": {
"data": [
{
- "id": "2",
+ "id": "973655094",
"type": "investigations"
}
]
@@ -89,7 +92,7 @@
"studies": {
"data": [
{
- "id": "2",
+ "id": "1060385125",
"type": "studies"
}
]
@@ -97,7 +100,7 @@
"assays": {
"data": [
{
- "id": "2",
+ "id": "1035386870",
"type": "assays"
}
]
@@ -105,21 +108,21 @@
"people": {
"data": [
{
- "id": "2",
+ "id": "1039988186",
"type": "people"
}
]
}
},
"links": {
- "self": "/samples/4"
+ "self": "/samples/177"
},
"meta": {
- "created": "2023-03-06T15:24:11.241Z",
- "modified": "2023-03-06T15:24:11.220Z",
+ "created": "2024-06-20T12:38:26.000Z",
+ "modified": "2024-06-20T12:38:26.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "de769a80-9e60-013b-15a0-0a81884ed284"
+ "uuid": "e9ee4c30-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sampleResponse.json b/public/api/examples/sampleResponse.json
index 96c4c47cfd..662806302a 100644
--- a/public/api/examples/sampleResponse.json
+++ b/public/api/examples/sampleResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "6",
+ "id": "190",
"type": "samples",
"attributes": {
"policy": {
@@ -17,8 +17,8 @@
"tag1",
"tag2"
],
- "created_at": "2023-03-06T15:24:14.918Z",
- "updated_at": "2023-03-06T15:24:14.918Z",
+ "created_at": "2024-06-20T12:38:31.000Z",
+ "updated_at": "2024-06-20T12:38:31.000Z",
"creators": [
],
@@ -35,16 +35,19 @@
],
"patients": [
{
- "id": 4,
+ "id": 188,
"type": "Sample",
"title": "Fred Bloggs"
},
{
- "id": 5,
+ "id": 189,
"type": "Sample",
"title": "Fred Bloggs"
}
- ]
+ ],
+ "weight": 3.7,
+ "age": 42,
+ "bool": true
}
},
"relationships": {
@@ -56,21 +59,21 @@
"submitter": {
"data": [
{
- "id": "17",
+ "id": "1039988230",
"type": "people"
}
]
},
"sample_type": {
"data": {
- "id": "6",
+ "id": "263",
"type": "sample_types"
}
},
"projects": {
"data": [
{
- "id": "17",
+ "id": "1022252309",
"type": "projects"
}
]
@@ -98,21 +101,21 @@
"people": {
"data": [
{
- "id": "17",
+ "id": "1039988230",
"type": "people"
}
]
}
},
"links": {
- "self": "/samples/6"
+ "self": "/samples/190"
},
"meta": {
- "created": "2023-03-06T15:24:14.918Z",
- "modified": "2023-03-06T15:24:14.918Z",
+ "created": "2024-06-20T12:38:31.000Z",
+ "modified": "2024-06-20T12:38:31.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "e0a80650-9e60-013b-15a0-0a81884ed284"
+ "uuid": "ecf56830-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sampleTypePatch.json b/public/api/examples/sampleTypePatch.json
index b94869b5cb..4a59e01de0 100644
--- a/public/api/examples/sampleTypePatch.json
+++ b/public/api/examples/sampleTypePatch.json
@@ -1,15 +1,15 @@
{
"data": {
"type": "sample_types",
- "id": "23",
+ "id": "118",
"attributes": {
"title": "This is a new title.",
"sample_attributes": [
{
- "id": "39",
+ "id": "206",
"title": "This is a new attribute title",
"sample_attribute_type": {
- "title": "String attribute type 16"
+ "title": "String attribute type 513"
}
}
],
@@ -21,7 +21,7 @@
"projects": {
"data": [
{
- "id": "953",
+ "id": "1022251411",
"type": "projects"
}
]
@@ -29,7 +29,7 @@
"assays": {
"data": [
{
- "id": "133",
+ "id": "1035386724",
"type": "assays"
}
]
diff --git a/public/api/examples/sampleTypePatchResponse.json b/public/api/examples/sampleTypePatchResponse.json
index 69b5ee4eee..85e68b2020 100644
--- a/public/api/examples/sampleTypePatchResponse.json
+++ b/public/api/examples/sampleTypePatchResponse.json
@@ -1,19 +1,19 @@
{
"data": {
- "id": "23",
+ "id": "118",
"type": "sample_types",
"attributes": {
"title": "This is a new title.",
"description": null,
"sample_attributes": [
{
- "id": "39",
+ "id": "206",
"title": "This is a new attribute title",
"description": null,
"pid": null,
"sample_attribute_type": {
- "id": "38",
- "title": "String attribute type 16",
+ "id": "875",
+ "title": "String attribute type 513",
"base_type": "String",
"regexp": ".*"
},
@@ -33,7 +33,7 @@
"projects": {
"data": [
{
- "id": "953",
+ "id": "1022251411",
"type": "projects"
}
]
@@ -46,7 +46,7 @@
"submitter": {
"data": [
{
- "id": "872",
+ "id": "1039987344",
"type": "people"
}
]
@@ -54,21 +54,21 @@
"assays": {
"data": [
{
- "id": "133",
+ "id": "1035386724",
"type": "assays"
}
]
}
},
"links": {
- "self": "/sample_types/23"
+ "self": "/sample_types/118"
},
"meta": {
- "created": "2022-06-07T14:14:37.000Z",
- "modified": "2022-06-07T14:14:37.000Z",
+ "created": "2024-06-20T12:36:24.000Z",
+ "modified": "2024-06-20T12:36:24.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "16802d40-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "a100d230-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sampleTypePost.json b/public/api/examples/sampleTypePost.json
index a01e34a737..4a75983d64 100644
--- a/public/api/examples/sampleTypePost.json
+++ b/public/api/examples/sampleTypePost.json
@@ -8,7 +8,7 @@
{
"title": "full name",
"sample_attribute_type": {
- "title": "String attribute type 13"
+ "title": "String attribute type 510"
},
"required": true,
"pos": 1,
@@ -21,7 +21,7 @@
"projects": {
"data": [
{
- "id": "938",
+ "id": "1022251394",
"type": "projects"
}
]
@@ -29,7 +29,7 @@
"assays": {
"data": [
{
- "id": "128",
+ "id": "1035386719",
"type": "assays"
}
]
diff --git a/public/api/examples/sampleTypePostResponse.json b/public/api/examples/sampleTypePostResponse.json
index c2f41e0085..45020606a2 100644
--- a/public/api/examples/sampleTypePostResponse.json
+++ b/public/api/examples/sampleTypePostResponse.json
@@ -1,19 +1,19 @@
{
"data": {
- "id": "17",
+ "id": "110",
"type": "sample_types",
"attributes": {
"title": "A Maximal SampleType",
"description": "A very new research",
"sample_attributes": [
{
- "id": "27",
+ "id": "172",
"title": "full name",
"description": null,
"pid": null,
"sample_attribute_type": {
- "id": "26",
- "title": "String attribute type 13",
+ "id": "841",
+ "title": "String attribute type 510",
"base_type": "String",
"regexp": ".*"
},
@@ -33,7 +33,7 @@
"projects": {
"data": [
{
- "id": "938",
+ "id": "1022251394",
"type": "projects"
}
]
@@ -46,7 +46,7 @@
"submitter": {
"data": [
{
- "id": "857",
+ "id": "1039987327",
"type": "people"
}
]
@@ -54,21 +54,21 @@
"assays": {
"data": [
{
- "id": "128",
+ "id": "1035386719",
"type": "assays"
}
]
}
},
"links": {
- "self": "/sample_types/17"
+ "self": "/sample_types/110"
},
"meta": {
- "created": "2022-06-07T14:14:35.000Z",
- "modified": "2022-06-07T14:14:35.000Z",
+ "created": "2024-06-20T12:36:22.000Z",
+ "modified": "2024-06-20T12:36:22.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "154f5710-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "9fc408f0-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sampleTypeResponse.json b/public/api/examples/sampleTypeResponse.json
index 7613bde3c2..9c6cddb4ca 100644
--- a/public/api/examples/sampleTypeResponse.json
+++ b/public/api/examples/sampleTypeResponse.json
@@ -1,18 +1,18 @@
{
"data": {
- "id": "22",
+ "id": "117",
"type": "sample_types",
"attributes": {
"title": "A Maximal SampleType",
"description": "A very new research",
"sample_attributes": [
{
- "id": "35",
+ "id": "196",
"title": "full_name",
"description": "the persons full name",
"pid": null,
"sample_attribute_type": {
- "id": "34",
+ "id": "860",
"title": "Full name",
"base_type": "String",
"regexp": "[A-Z][a-z]+[ ][A-Z][a-z]+"
@@ -25,12 +25,12 @@
"linked_sample_type_id": null
},
{
- "id": "36",
+ "id": "197",
"title": "address",
"description": null,
"pid": null,
"sample_attribute_type": {
- "id": "35",
+ "id": "861",
"title": "Address",
"base_type": "Text",
"regexp": ".*"
@@ -43,12 +43,12 @@
"linked_sample_type_id": null
},
{
- "id": "37",
+ "id": "198",
"title": "postcode",
"description": null,
"pid": "dc:postcode",
"sample_attribute_type": {
- "id": "36",
+ "id": "862",
"title": "Post Code",
"base_type": "String",
"regexp": "^([A-PR-UWYZ0-9][A-HK-Y0-9][AEHMNPRTVXY0-9]?[ABEHMNPRVWXY0-9]? {1,2}[0-9][ABD-HJLN-UW-Z]{2}|GIR 0AA)$"
@@ -61,12 +61,12 @@
"linked_sample_type_id": null
},
{
- "id": "38",
+ "id": "199",
"title": "CAPITAL key",
"description": null,
"pid": null,
"sample_attribute_type": {
- "id": "37",
+ "id": "863",
"title": "String",
"base_type": "String",
"regexp": ".*"
@@ -77,6 +77,114 @@
"is_title": false,
"sample_controlled_vocab_id": null,
"linked_sample_type_id": null
+ },
+ {
+ "id": "200",
+ "title": "apple",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "864",
+ "title": "CV attribute type 14",
+ "base_type": "CV",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 5,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": "110",
+ "linked_sample_type_id": null
+ },
+ {
+ "id": "201",
+ "title": "apples",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "865",
+ "title": "CV List attribute type 4",
+ "base_type": "CVList",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 6,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": "111",
+ "linked_sample_type_id": null
+ },
+ {
+ "id": "202",
+ "title": "patients",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "874",
+ "title": "Sample multi attribute type 8",
+ "base_type": "SeekSampleMulti",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 7,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": null,
+ "linked_sample_type_id": "116"
+ },
+ {
+ "id": "203",
+ "title": "weight",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "871",
+ "title": "Float attribute type 4",
+ "base_type": "Float",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 8,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": null,
+ "linked_sample_type_id": null
+ },
+ {
+ "id": "204",
+ "title": "age",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "872",
+ "title": "Integer attribute type 47",
+ "base_type": "Integer",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 9,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": null,
+ "linked_sample_type_id": null
+ },
+ {
+ "id": "205",
+ "title": "bool",
+ "description": null,
+ "pid": null,
+ "sample_attribute_type": {
+ "id": "873",
+ "title": "Boolean attribute type 4",
+ "base_type": "Boolean",
+ "regexp": ".*"
+ },
+ "required": false,
+ "pos": 10,
+ "unit": null,
+ "is_title": false,
+ "sample_controlled_vocab_id": null,
+ "linked_sample_type_id": null
}
],
"tags": [
@@ -88,7 +196,7 @@
"projects": {
"data": [
{
- "id": "951",
+ "id": "1022251408",
"type": "projects"
}
]
@@ -101,7 +209,7 @@
"submitter": {
"data": [
{
- "id": "870",
+ "id": "1039987341",
"type": "people"
}
]
@@ -109,21 +217,21 @@
"assays": {
"data": [
{
- "id": "132",
+ "id": "1035386723",
"type": "assays"
}
]
}
},
"links": {
- "self": "/sample_types/22"
+ "self": "/sample_types/117"
},
"meta": {
- "created": "2022-06-07T14:14:37.000Z",
- "modified": "2022-06-07T14:14:37.000Z",
+ "created": "2024-06-20T12:36:23.000Z",
+ "modified": "2024-06-20T12:36:23.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "16537c20-c89a-013a-0f7e-0a81884ed284"
+ "uuid": "a0d6d860-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sopPatch.json b/public/api/examples/sopPatch.json
index e2bfe11ce3..44aeaeafe1 100644
--- a/public/api/examples/sopPatch.json
+++ b/public/api/examples/sopPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "sops",
- "id": "16",
+ "id": "1055250535",
"attributes": {
"title": "A Maximally Patched SOP",
"description": "Protocol",
@@ -17,7 +17,7 @@
"permissions": [
{
"resource": {
- "id": "218",
+ "id": "1022253019",
"type": "projects"
},
"access": "edit"
@@ -29,7 +29,7 @@
"creators": {
"data": [
{
- "id": "205",
+ "id": "1039988892",
"type": "people"
}
]
@@ -37,7 +37,7 @@
"projects": {
"data": [
{
- "id": "218",
+ "id": "1022253019",
"type": "projects"
}
]
@@ -45,7 +45,7 @@
"assays": {
"data": [
{
- "id": "28",
+ "id": "1035386971",
"type": "assays"
}
]
@@ -53,7 +53,7 @@
"workflows": {
"data": [
{
- "id": "8",
+ "id": "257",
"type": "workflows"
}
]
diff --git a/public/api/examples/sopPatchResponse.json b/public/api/examples/sopPatchResponse.json
index c274592884..fe4150d96c 100644
--- a/public/api/examples/sopPatchResponse.json
+++ b/public/api/examples/sopPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "16",
+ "id": "1055250535",
"type": "sops",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "218",
+ "id": "1022253019",
"type": "projects"
},
"access": "edit"
@@ -31,32 +31,32 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/sops/16?version=1",
+ "url": "http://localhost:3000/sops/1055250535?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:12:53.000Z",
- "updated_at": "2022-06-07T14:12:53.000Z",
+ "created_at": "2024-06-20T12:40:04.000Z",
+ "updated_at": "2024-06-20T12:40:04.000Z",
"doi": null,
"content_blobs": [
{
"original_filename": "sop.pdf",
"url": null,
- "md5sum": "63f964868d572e9de7e5a61b2dc27cfa",
- "sha1sum": "77197c545a4465cedfc6d75258b7c2765869010c",
+ "md5sum": "341b39c240d2b301e5a2add1357937db",
+ "sha1sum": "4418725b3d755ed1247b0e6d05598637314ce8fb",
"content_type": "application/pdf",
- "link": "http://localhost:3000/sops/16/content_blobs/89",
- "size": 9
+ "link": "http://localhost:3000/sops/1055250535/content_blobs/1050453320",
+ "size": 10
}
],
"creators": [
{
- "profile": "/people/205",
+ "profile": "/people/1039988892",
"family_name": "Last",
- "given_name": "Person167",
- "affiliation": "An Institution: 207",
+ "given_name": "Person3658",
+ "affiliation": "An Institution: 4548",
"orcid": null
}
],
@@ -66,7 +66,7 @@
"creators": {
"data": [
{
- "id": "205",
+ "id": "1039988892",
"type": "people"
}
]
@@ -74,7 +74,7 @@
"submitter": {
"data": [
{
- "id": "204",
+ "id": "1039988891",
"type": "people"
}
]
@@ -82,11 +82,11 @@
"people": {
"data": [
{
- "id": "204",
+ "id": "1039988891",
"type": "people"
},
{
- "id": "205",
+ "id": "1039988892",
"type": "people"
}
]
@@ -94,7 +94,7 @@
"projects": {
"data": [
{
- "id": "218",
+ "id": "1022253019",
"type": "projects"
}
]
@@ -102,7 +102,7 @@
"investigations": {
"data": [
{
- "id": "32",
+ "id": "973655203",
"type": "investigations"
}
]
@@ -110,7 +110,7 @@
"studies": {
"data": [
{
- "id": "30",
+ "id": "1060385230",
"type": "studies"
}
]
@@ -118,7 +118,7 @@
"assays": {
"data": [
{
- "id": "28",
+ "id": "1035386971",
"type": "assays"
}
]
@@ -131,21 +131,21 @@
"workflows": {
"data": [
{
- "id": "8",
+ "id": "257",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/sops/16?version=1"
+ "self": "/sops/1055250535?version=1"
},
"meta": {
- "created": "2022-06-07T14:12:53.000Z",
- "modified": "2022-06-07T14:12:53.000Z",
+ "created": "2024-06-20T12:40:04.000Z",
+ "modified": "2024-06-20T12:40:04.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "d838c140-c899-013a-0f7e-0a81884ed284"
+ "uuid": "24609170-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sopPost.json b/public/api/examples/sopPost.json
index 1b5d0579e0..d609a44bae 100644
--- a/public/api/examples/sopPost.json
+++ b/public/api/examples/sopPost.json
@@ -21,7 +21,7 @@
"permissions": [
{
"resource": {
- "id": "128",
+ "id": "1022252921",
"type": "projects"
},
"access": "edit"
@@ -33,7 +33,7 @@
"creators": {
"data": [
{
- "id": "121",
+ "id": "1039988800",
"type": "people"
}
]
@@ -41,7 +41,7 @@
"projects": {
"data": [
{
- "id": "128",
+ "id": "1022252921",
"type": "projects"
}
]
@@ -49,7 +49,7 @@
"assays": {
"data": [
{
- "id": "13",
+ "id": "1035386954",
"type": "assays"
}
]
@@ -57,7 +57,7 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "250",
"type": "workflows"
}
]
diff --git a/public/api/examples/sopPostResponse.json b/public/api/examples/sopPostResponse.json
index 504a9773b8..424263dc76 100644
--- a/public/api/examples/sopPostResponse.json
+++ b/public/api/examples/sopPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "6",
+ "id": "1055250525",
"type": "sops",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "128",
+ "id": "1022252921",
"type": "projects"
},
"access": "edit"
@@ -30,14 +30,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/sops/6?version=1",
+ "url": "http://localhost:3000/sops/1055250525?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:12:40.000Z",
- "updated_at": "2022-06-07T14:12:40.000Z",
+ "created_at": "2024-06-20T12:39:52.000Z",
+ "updated_at": "2024-06-20T12:39:52.000Z",
"doi": null,
"content_blobs": [
{
@@ -46,16 +46,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/pdf",
- "link": "http://localhost:3000/sops/6/content_blobs/47",
+ "link": "http://localhost:3000/sops/1055250525/content_blobs/1050453288",
"size": null
}
],
"creators": [
{
- "profile": "/people/121",
+ "profile": "/people/1039988800",
"family_name": "Last",
- "given_name": "Person94",
- "affiliation": "An Institution: 123",
+ "given_name": "Person3577",
+ "affiliation": "An Institution: 4456",
"orcid": null
}
],
@@ -65,7 +65,7 @@
"creators": {
"data": [
{
- "id": "121",
+ "id": "1039988800",
"type": "people"
}
]
@@ -73,7 +73,7 @@
"submitter": {
"data": [
{
- "id": "120",
+ "id": "1039988799",
"type": "people"
}
]
@@ -81,11 +81,11 @@
"people": {
"data": [
{
- "id": "120",
+ "id": "1039988799",
"type": "people"
},
{
- "id": "121",
+ "id": "1039988800",
"type": "people"
}
]
@@ -93,7 +93,7 @@
"projects": {
"data": [
{
- "id": "128",
+ "id": "1022252921",
"type": "projects"
}
]
@@ -101,7 +101,7 @@
"investigations": {
"data": [
{
- "id": "13",
+ "id": "973655182",
"type": "investigations"
}
]
@@ -109,7 +109,7 @@
"studies": {
"data": [
{
- "id": "13",
+ "id": "1060385211",
"type": "studies"
}
]
@@ -117,7 +117,7 @@
"assays": {
"data": [
{
- "id": "13",
+ "id": "1035386954",
"type": "assays"
}
]
@@ -130,21 +130,21 @@
"workflows": {
"data": [
{
- "id": "1",
+ "id": "250",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/sops/6?version=1"
+ "self": "/sops/1055250525?version=1"
},
"meta": {
- "created": "2022-06-07T14:12:40.000Z",
- "modified": "2022-06-07T14:12:40.000Z",
+ "created": "2024-06-20T12:39:52.000Z",
+ "modified": "2024-06-20T12:39:52.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "d05fcab0-c899-013a-0f7e-0a81884ed284"
+ "uuid": "1d3e5240-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sopResponse.json b/public/api/examples/sopResponse.json
index 79efaa3966..e1a45286f0 100644
--- a/public/api/examples/sopResponse.json
+++ b/public/api/examples/sopResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "15",
+ "id": "1055250534",
"type": "sops",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "14",
+ "id": "264",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/sops/15?version=1",
+ "url": "http://localhost:3000/sops/1055250534?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2022-06-07T14:12:52.000Z",
- "updated_at": "2022-06-07T14:12:52.000Z",
+ "created_at": "2024-06-20T12:40:04.000Z",
+ "updated_at": "2024-06-20T12:40:04.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,13 +47,13 @@
"md5sum": "726de0a3f94d65056b909b9736e10349",
"sha1sum": "fbcc0dee4b5415de4c82ef5b137d8231fec1331b",
"content_type": "application/pdf",
- "link": "http://localhost:3000/sops/15/content_blobs/88",
+ "link": "http://localhost:3000/sops/1055250534/content_blobs/1050453319",
"size": 8
}
],
"creators": [
{
- "profile": "/people/201",
+ "profile": "/people/1039988888",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -66,7 +66,7 @@
"creators": {
"data": [
{
- "id": "201",
+ "id": "1039988888",
"type": "people"
}
]
@@ -74,7 +74,7 @@
"submitter": {
"data": [
{
- "id": "202",
+ "id": "1039988889",
"type": "people"
}
]
@@ -82,11 +82,11 @@
"people": {
"data": [
{
- "id": "201",
+ "id": "1039988888",
"type": "people"
},
{
- "id": "202",
+ "id": "1039988889",
"type": "people"
}
]
@@ -94,7 +94,7 @@
"projects": {
"data": [
{
- "id": "208",
+ "id": "1022253009",
"type": "projects"
}
]
@@ -102,7 +102,7 @@
"investigations": {
"data": [
{
- "id": "31",
+ "id": "973655202",
"type": "investigations"
}
]
@@ -110,7 +110,7 @@
"studies": {
"data": [
{
- "id": "29",
+ "id": "1060385229",
"type": "studies"
}
]
@@ -118,7 +118,7 @@
"assays": {
"data": [
{
- "id": "27",
+ "id": "1035386970",
"type": "assays"
}
]
@@ -126,7 +126,7 @@
"publications": {
"data": [
{
- "id": "10",
+ "id": "346",
"type": "publications"
}
]
@@ -134,21 +134,21 @@
"workflows": {
"data": [
{
- "id": "7",
+ "id": "256",
"type": "workflows"
}
]
}
},
"links": {
- "self": "/sops/15?version=1"
+ "self": "/sops/1055250534?version=1"
},
"meta": {
- "created": "2022-06-07T14:12:52.000Z",
- "modified": "2022-06-07T14:12:52.000Z",
+ "created": "2024-06-20T12:40:03.000Z",
+ "modified": "2024-06-20T12:40:04.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "d7d1a740-c899-013a-0f7e-0a81884ed284"
+ "uuid": "2405a950-1130-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/sopsResponse.json b/public/api/examples/sopsResponse.json
index 9c144829d0..4136bac780 100644
--- a/public/api/examples/sopsResponse.json
+++ b/public/api/examples/sopsResponse.json
@@ -1,23 +1,23 @@
{
"data": [
{
- "id": "10",
+ "id": "1055250529",
"type": "sops",
"attributes": {
"title": "This Sop"
},
"links": {
- "self": "/sops/10"
+ "self": "/sops/1055250529"
}
},
{
- "id": "9",
+ "id": "1055250528",
"type": "sops",
"attributes": {
"title": "This Sop"
},
"links": {
- "self": "/sops/9"
+ "self": "/sops/1055250528"
}
}
],
diff --git a/public/api/examples/studiesResponse.json b/public/api/examples/studiesResponse.json
index 297e3862e1..72491c7a7f 100644
--- a/public/api/examples/studiesResponse.json
+++ b/public/api/examples/studiesResponse.json
@@ -1,13 +1,13 @@
{
"data": [
{
- "id": "3086",
+ "id": "1060385027",
"type": "studies",
"attributes": {
- "title": "Study49"
+ "title": "Study469"
},
"links": {
- "self": "/studies/3086"
+ "self": "/studies/1060385027"
}
}
],
diff --git a/public/api/examples/studyPatch.json b/public/api/examples/studyPatch.json
index 5b0327caf0..16c1c55bd2 100644
--- a/public/api/examples/studyPatch.json
+++ b/public/api/examples/studyPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "studies",
- "id": "3096",
+ "id": "1060385037",
"attributes": {
"title": "A Maximal Study",
"description": "The Study of many things",
@@ -12,7 +12,7 @@
"permissions": [
{
"resource": {
- "id": "11830",
+ "id": "1022251755",
"type": "projects"
},
"access": "view"
@@ -20,7 +20,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "940",
+ "extended_metadata_type_id": "308",
"attribute_map": {
"name": "Fred Bloggs",
"age": 44,
@@ -31,14 +31,14 @@
"relationships": {
"investigation": {
"data": {
- "id": "4131",
+ "id": "973655004",
"type": "investigations"
}
},
"publications": {
"data": [
{
- "id": "1531",
+ "id": "268",
"type": "publications"
}
]
@@ -46,7 +46,7 @@
"creators": {
"data": [
{
- "id": "10375",
+ "id": "1039987655",
"type": "people"
}
]
diff --git a/public/api/examples/studyPatchResponse.json b/public/api/examples/studyPatchResponse.json
index ef367a22eb..76ca6abaac 100644
--- a/public/api/examples/studyPatchResponse.json
+++ b/public/api/examples/studyPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "3096",
+ "id": "1060385037",
"type": "studies",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "11830",
+ "id": "1022251755",
"type": "projects"
},
"access": "view"
@@ -19,7 +19,7 @@
],
"extended_attributes": {
- "extended_metadata_type_id": "940",
+ "extended_metadata_type_id": "308",
"attribute_map": {
"age": 44,
"name": "Fred Bloggs",
@@ -36,10 +36,10 @@
"position": null,
"creators": [
{
- "profile": "/people/10375",
+ "profile": "/people/1039987655",
"family_name": "Last",
- "given_name": "Person138",
- "affiliation": "An Institution: 173",
+ "given_name": "Person2639",
+ "affiliation": "An Institution: 3314",
"orcid": null
}
]
@@ -48,7 +48,7 @@
"creators": {
"data": [
{
- "id": "10375",
+ "id": "1039987655",
"type": "people"
}
]
@@ -56,7 +56,7 @@
"submitter": {
"data": [
{
- "id": "10375",
+ "id": "1039987655",
"type": "people"
}
]
@@ -64,7 +64,7 @@
"people": {
"data": [
{
- "id": "10375",
+ "id": "1039987655",
"type": "people"
}
]
@@ -72,14 +72,14 @@
"projects": {
"data": [
{
- "id": "11830",
+ "id": "1022251755",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "4131",
+ "id": "973655004",
"type": "investigations"
}
},
@@ -106,7 +106,7 @@
"publications": {
"data": [
{
- "id": "1531",
+ "id": "268",
"type": "publications"
}
]
@@ -118,14 +118,14 @@
}
},
"links": {
- "self": "/studies/3096"
+ "self": "/studies/1060385037"
},
"meta": {
- "created": "2024-03-15T10:03:27.000Z",
- "modified": "2024-03-15T10:03:27.000Z",
+ "created": "2024-06-20T12:37:18.000Z",
+ "modified": "2024-06-20T12:37:18.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "31299a30-c4e1-013c-640d-7efdca78d793"
+ "uuid": "c12f3e20-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/studyPost.json b/public/api/examples/studyPost.json
index 6b7cf7cbf1..4d9507a55e 100644
--- a/public/api/examples/studyPost.json
+++ b/public/api/examples/studyPost.json
@@ -11,7 +11,7 @@
"permissions": [
{
"resource": {
- "id": "11779",
+ "id": "1022251704",
"type": "projects"
},
"access": "view"
@@ -19,7 +19,7 @@
]
},
"extended_attributes": {
- "extended_metadata_type_id": "935",
+ "extended_metadata_type_id": "303",
"attribute_map": {
"name": "Fred Bloggs",
"age": 44,
@@ -30,14 +30,14 @@
"relationships": {
"investigation": {
"data": {
- "id": "4110",
+ "id": "973654983",
"type": "investigations"
}
},
"publications": {
"data": [
{
- "id": "1526",
+ "id": "263",
"type": "publications"
}
]
@@ -45,7 +45,7 @@
"creators": {
"data": [
{
- "id": "10329",
+ "id": "1039987609",
"type": "people"
}
]
diff --git a/public/api/examples/studyPostResponse.json b/public/api/examples/studyPostResponse.json
index 3038b57a85..32c8e6e958 100644
--- a/public/api/examples/studyPostResponse.json
+++ b/public/api/examples/studyPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "3078",
+ "id": "1060385019",
"type": "studies",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "11779",
+ "id": "1022251704",
"type": "projects"
},
"access": "view"
@@ -19,7 +19,7 @@
],
"extended_attributes": {
- "extended_metadata_type_id": "935",
+ "extended_metadata_type_id": "303",
"attribute_map": {
"age": 44,
"name": "Fred Bloggs",
@@ -36,10 +36,10 @@
"position": null,
"creators": [
{
- "profile": "/people/10329",
+ "profile": "/people/1039987609",
"family_name": "Last",
- "given_name": "Person99",
- "affiliation": "An Institution: 127",
+ "given_name": "Person2600",
+ "affiliation": "An Institution: 3268",
"orcid": null
}
]
@@ -48,7 +48,7 @@
"creators": {
"data": [
{
- "id": "10329",
+ "id": "1039987609",
"type": "people"
}
]
@@ -56,7 +56,7 @@
"submitter": {
"data": [
{
- "id": "10329",
+ "id": "1039987609",
"type": "people"
}
]
@@ -64,7 +64,7 @@
"people": {
"data": [
{
- "id": "10329",
+ "id": "1039987609",
"type": "people"
}
]
@@ -72,14 +72,14 @@
"projects": {
"data": [
{
- "id": "11779",
+ "id": "1022251704",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "4110",
+ "id": "973654983",
"type": "investigations"
}
},
@@ -106,7 +106,7 @@
"publications": {
"data": [
{
- "id": "1526",
+ "id": "263",
"type": "publications"
}
]
@@ -118,14 +118,14 @@
}
},
"links": {
- "self": "/studies/3078"
+ "self": "/studies/1060385019"
},
"meta": {
- "created": "2024-03-15T10:03:23.000Z",
- "modified": "2024-03-15T10:03:23.000Z",
+ "created": "2024-06-20T12:37:11.000Z",
+ "modified": "2024-06-20T12:37:11.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "2f175c70-c4e1-013c-640d-7efdca78d793"
+ "uuid": "bd177b10-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/studyResponse.json b/public/api/examples/studyResponse.json
index 8ad45d9701..c9eefe7983 100644
--- a/public/api/examples/studyResponse.json
+++ b/public/api/examples/studyResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "3095",
+ "id": "1060385036",
"type": "studies",
"attributes": {
"policy": {
@@ -11,13 +11,13 @@
},
"discussion_links": [
{
- "id": "507",
+ "id": "205",
"label": "Slack",
"url": "http://www.slack.com/"
}
],
"extended_attributes": {
- "extended_metadata_type_id": "939",
+ "extended_metadata_type_id": "307",
"attribute_map": {
"age": 44,
"name": "Fred Bloggs",
@@ -34,7 +34,7 @@
"position": null,
"creators": [
{
- "profile": "/people/10358",
+ "profile": "/people/1039987638",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -46,7 +46,7 @@
"creators": {
"data": [
{
- "id": "10358",
+ "id": "1039987638",
"type": "people"
}
]
@@ -54,7 +54,7 @@
"submitter": {
"data": [
{
- "id": "10356",
+ "id": "1039987636",
"type": "people"
}
]
@@ -62,11 +62,11 @@
"people": {
"data": [
{
- "id": "10356",
+ "id": "1039987636",
"type": "people"
},
{
- "id": "10358",
+ "id": "1039987638",
"type": "people"
}
]
@@ -74,21 +74,21 @@
"projects": {
"data": [
{
- "id": "11810",
+ "id": "1022251735",
"type": "projects"
}
]
},
"investigation": {
"data": {
- "id": "4124",
+ "id": "973654997",
"type": "investigations"
}
},
"assays": {
"data": [
{
- "id": "1498",
+ "id": "1035386783",
"type": "assays"
}
]
@@ -96,7 +96,7 @@
"data_files": {
"data": [
{
- "id": "390",
+ "id": "883654357",
"type": "data_files"
}
]
@@ -104,7 +104,7 @@
"models": {
"data": [
{
- "id": "511",
+ "id": "1004285512",
"type": "models"
}
]
@@ -112,7 +112,7 @@
"sops": {
"data": [
{
- "id": "372",
+ "id": "1055250477",
"type": "sops"
}
]
@@ -120,7 +120,7 @@
"publications": {
"data": [
{
- "id": "1530",
+ "id": "267",
"type": "publications"
}
]
@@ -128,21 +128,21 @@
"documents": {
"data": [
{
- "id": "442",
+ "id": "263",
"type": "documents"
}
]
}
},
"links": {
- "self": "/studies/3095"
+ "self": "/studies/1060385036"
},
"meta": {
- "created": "2024-03-15T10:03:27.000Z",
- "modified": "2024-03-15T10:03:27.000Z",
+ "created": "2024-06-20T12:37:17.000Z",
+ "modified": "2024-06-20T12:37:17.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "3100d260-c4e1-013c-640d-7efdca78d793"
+ "uuid": "c0e05a40-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/workflowPatch.json b/public/api/examples/workflowPatch.json
index 44ff553325..edffe1c0f7 100644
--- a/public/api/examples/workflowPatch.json
+++ b/public/api/examples/workflowPatch.json
@@ -1,7 +1,7 @@
{
"data": {
"type": "workflows",
- "id": "110",
+ "id": "179",
"attributes": {
"title": "A Maximally Patched Workflow",
"description": "A workflow to do important stuff",
@@ -46,7 +46,7 @@
"permissions": [
{
"resource": {
- "id": "409",
+ "id": "1022251551",
"type": "projects"
},
"access": "edit"
@@ -58,7 +58,7 @@
"creators": {
"data": [
{
- "id": "400",
+ "id": "1039987481",
"type": "people"
}
]
@@ -66,7 +66,7 @@
"projects": {
"data": [
{
- "id": "409",
+ "id": "1022251551",
"type": "projects"
}
]
@@ -74,7 +74,7 @@
"assays": {
"data": [
{
- "id": "85",
+ "id": "1035386753",
"type": "assays"
}
]
@@ -82,7 +82,7 @@
"publications": {
"data": [
{
- "id": "85",
+ "id": "238",
"type": "publications"
}
]
@@ -90,7 +90,7 @@
"presentations": {
"data": [
{
- "id": "75",
+ "id": "114",
"type": "presentations"
}
]
@@ -98,7 +98,7 @@
"data_files": {
"data": [
{
- "id": "75",
+ "id": "883654352",
"type": "data_files"
}
]
@@ -106,7 +106,7 @@
"documents": {
"data": [
{
- "id": "75",
+ "id": "258",
"type": "documents"
}
]
@@ -114,7 +114,7 @@
"sops": {
"data": [
{
- "id": "75",
+ "id": "1055250472",
"type": "sops"
}
]
diff --git a/public/api/examples/workflowPatchResponse.json b/public/api/examples/workflowPatchResponse.json
index c34e8e956c..9c44252882 100644
--- a/public/api/examples/workflowPatchResponse.json
+++ b/public/api/examples/workflowPatchResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "110",
+ "id": "179",
"type": "workflows",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "409",
+ "id": "1022251551",
"type": "projects"
},
"access": "edit"
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/workflows/110?version=1",
+ "url": "http://localhost:3000/workflows/179?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-06-14T10:43:21.000Z",
- "updated_at": "2023-06-14T10:43:22.000Z",
+ "created_at": "2024-06-20T12:36:52.000Z",
+ "updated_at": "2024-06-20T12:36:52.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,16 +47,16 @@
"md5sum": "ef2ea32522098acc937199f6c2b64f41",
"sha1sum": "a5133ccdb0376324d039431e4eff4f7d21a751cd",
"content_type": "application/x-yaml",
- "link": "http://localhost:3000/workflows/110/content_blobs/420",
+ "link": "http://localhost:3000/workflows/179/content_blobs/1050452922",
"size": 732
}
],
"creators": [
{
- "profile": "/people/400",
+ "profile": "/people/1039987481",
"family_name": "Last",
- "given_name": "Person108",
- "affiliation": "An Institution: 137",
+ "given_name": "Person2500",
+ "affiliation": "An Institution: 3140",
"orcid": null
}
],
@@ -99,7 +99,7 @@
"creators": {
"data": [
{
- "id": "400",
+ "id": "1039987481",
"type": "people"
}
]
@@ -107,7 +107,7 @@
"submitter": {
"data": [
{
- "id": "399",
+ "id": "1039987480",
"type": "people"
}
]
@@ -115,11 +115,11 @@
"people": {
"data": [
{
- "id": "399",
+ "id": "1039987480",
"type": "people"
},
{
- "id": "400",
+ "id": "1039987481",
"type": "people"
}
]
@@ -127,7 +127,7 @@
"projects": {
"data": [
{
- "id": "409",
+ "id": "1022251551",
"type": "projects"
}
]
@@ -135,7 +135,7 @@
"investigations": {
"data": [
{
- "id": "85",
+ "id": "973654915",
"type": "investigations"
}
]
@@ -143,7 +143,7 @@
"studies": {
"data": [
{
- "id": "85",
+ "id": "1060384969",
"type": "studies"
}
]
@@ -151,7 +151,7 @@
"assays": {
"data": [
{
- "id": "85",
+ "id": "1035386753",
"type": "assays"
}
]
@@ -159,7 +159,7 @@
"publications": {
"data": [
{
- "id": "85",
+ "id": "238",
"type": "publications"
}
]
@@ -167,7 +167,7 @@
"sops": {
"data": [
{
- "id": "75",
+ "id": "1055250472",
"type": "sops"
}
]
@@ -175,7 +175,7 @@
"presentations": {
"data": [
{
- "id": "75",
+ "id": "114",
"type": "presentations"
}
]
@@ -183,7 +183,7 @@
"data_files": {
"data": [
{
- "id": "75",
+ "id": "883654352",
"type": "data_files"
}
]
@@ -191,21 +191,21 @@
"documents": {
"data": [
{
- "id": "75",
+ "id": "258",
"type": "documents"
}
]
}
},
"links": {
- "self": "/workflows/110?version=1"
+ "self": "/workflows/179?version=1"
},
"meta": {
- "created": "2023-06-14T10:43:21.000Z",
- "modified": "2023-06-14T10:43:22.000Z",
+ "created": "2024-06-20T12:36:52.000Z",
+ "modified": "2024-06-20T12:36:52.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "34cbd200-ecce-013b-a2d8-000c29a94011"
+ "uuid": "b1d47590-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/workflowPost.json b/public/api/examples/workflowPost.json
index 01e930043c..871af9edc2 100644
--- a/public/api/examples/workflowPost.json
+++ b/public/api/examples/workflowPost.json
@@ -50,7 +50,7 @@
"permissions": [
{
"resource": {
- "id": "378",
+ "id": "1022251520",
"type": "projects"
},
"access": "edit"
@@ -62,7 +62,7 @@
"creators": {
"data": [
{
- "id": "371",
+ "id": "1039987452",
"type": "people"
}
]
@@ -70,7 +70,7 @@
"projects": {
"data": [
{
- "id": "378",
+ "id": "1022251520",
"type": "projects"
}
]
@@ -78,7 +78,7 @@
"assays": {
"data": [
{
- "id": "80",
+ "id": "1035386748",
"type": "assays"
}
]
@@ -86,7 +86,7 @@
"publications": {
"data": [
{
- "id": "80",
+ "id": "233",
"type": "publications"
}
]
@@ -94,7 +94,7 @@
"presentations": {
"data": [
{
- "id": "72",
+ "id": "111",
"type": "presentations"
}
]
@@ -102,7 +102,7 @@
"data_files": {
"data": [
{
- "id": "72",
+ "id": "883654349",
"type": "data_files"
}
]
@@ -110,7 +110,7 @@
"documents": {
"data": [
{
- "id": "72",
+ "id": "255",
"type": "documents"
}
]
@@ -118,7 +118,7 @@
"sops": {
"data": [
{
- "id": "72",
+ "id": "1055250469",
"type": "sops"
}
]
diff --git a/public/api/examples/workflowPostResponse.json b/public/api/examples/workflowPostResponse.json
index b5018f3525..d22963ba0f 100644
--- a/public/api/examples/workflowPostResponse.json
+++ b/public/api/examples/workflowPostResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "104",
+ "id": "173",
"type": "workflows",
"attributes": {
"policy": {
@@ -8,7 +8,7 @@
"permissions": [
{
"resource": {
- "id": "378",
+ "id": "1022251520",
"type": "projects"
},
"access": "edit"
@@ -30,14 +30,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/workflows/104?version=1",
+ "url": "http://localhost:3000/workflows/173?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-06-14T10:43:17.000Z",
- "updated_at": "2023-06-14T10:43:17.000Z",
+ "created_at": "2024-06-20T12:36:47.000Z",
+ "updated_at": "2024-06-20T12:36:47.000Z",
"doi": null,
"content_blobs": [
{
@@ -46,16 +46,16 @@
"md5sum": null,
"sha1sum": null,
"content_type": "application/x-yaml",
- "link": "http://localhost:3000/workflows/104/content_blobs/400",
+ "link": "http://localhost:3000/workflows/173/content_blobs/1050452902",
"size": null
}
],
"creators": [
{
- "profile": "/people/371",
+ "profile": "/people/1039987452",
"family_name": "Last",
- "given_name": "Person84",
- "affiliation": "An Institution: 108",
+ "given_name": "Person2476",
+ "affiliation": "An Institution: 3111",
"orcid": null
}
],
@@ -98,7 +98,7 @@
"creators": {
"data": [
{
- "id": "371",
+ "id": "1039987452",
"type": "people"
}
]
@@ -106,7 +106,7 @@
"submitter": {
"data": [
{
- "id": "370",
+ "id": "1039987451",
"type": "people"
}
]
@@ -114,11 +114,11 @@
"people": {
"data": [
{
- "id": "370",
+ "id": "1039987451",
"type": "people"
},
{
- "id": "371",
+ "id": "1039987452",
"type": "people"
}
]
@@ -126,7 +126,7 @@
"projects": {
"data": [
{
- "id": "378",
+ "id": "1022251520",
"type": "projects"
}
]
@@ -134,7 +134,7 @@
"investigations": {
"data": [
{
- "id": "80",
+ "id": "973654910",
"type": "investigations"
}
]
@@ -142,7 +142,7 @@
"studies": {
"data": [
{
- "id": "80",
+ "id": "1060384964",
"type": "studies"
}
]
@@ -150,7 +150,7 @@
"assays": {
"data": [
{
- "id": "80",
+ "id": "1035386748",
"type": "assays"
}
]
@@ -158,7 +158,7 @@
"publications": {
"data": [
{
- "id": "80",
+ "id": "233",
"type": "publications"
}
]
@@ -166,7 +166,7 @@
"sops": {
"data": [
{
- "id": "72",
+ "id": "1055250469",
"type": "sops"
}
]
@@ -174,7 +174,7 @@
"presentations": {
"data": [
{
- "id": "72",
+ "id": "111",
"type": "presentations"
}
]
@@ -182,7 +182,7 @@
"data_files": {
"data": [
{
- "id": "72",
+ "id": "883654349",
"type": "data_files"
}
]
@@ -190,21 +190,21 @@
"documents": {
"data": [
{
- "id": "72",
+ "id": "255",
"type": "documents"
}
]
}
},
"links": {
- "self": "/workflows/104?version=1"
+ "self": "/workflows/173?version=1"
},
"meta": {
- "created": "2023-06-14T10:43:17.000Z",
- "modified": "2023-06-14T10:43:17.000Z",
+ "created": "2024-06-20T12:36:47.000Z",
+ "modified": "2024-06-20T12:36:47.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "326333b0-ecce-013b-a2d8-000c29a94011"
+ "uuid": "af121740-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/public/api/examples/workflowResponse.json b/public/api/examples/workflowResponse.json
index db9cb1b572..c552256018 100644
--- a/public/api/examples/workflowResponse.json
+++ b/public/api/examples/workflowResponse.json
@@ -1,6 +1,6 @@
{
"data": {
- "id": "109",
+ "id": "178",
"type": "workflows",
"attributes": {
"policy": {
@@ -11,7 +11,7 @@
},
"discussion_links": [
{
- "id": "10",
+ "id": "195",
"label": "Slack",
"url": "http://www.slack.com/"
}
@@ -31,14 +31,14 @@
{
"version": 1,
"revision_comments": null,
- "url": "http://localhost:3000/workflows/109?version=1",
+ "url": "http://localhost:3000/workflows/178?version=1",
"doi": null
}
],
"version": 1,
"revision_comments": null,
- "created_at": "2023-06-14T10:43:21.000Z",
- "updated_at": "2023-06-14T10:43:21.000Z",
+ "created_at": "2024-06-20T12:36:51.000Z",
+ "updated_at": "2024-06-20T12:36:51.000Z",
"doi": null,
"content_blobs": [
{
@@ -47,13 +47,13 @@
"md5sum": "ef2ea32522098acc937199f6c2b64f41",
"sha1sum": "a5133ccdb0376324d039431e4eff4f7d21a751cd",
"content_type": "application/x-yaml",
- "link": "http://localhost:3000/workflows/109/content_blobs/415",
+ "link": "http://localhost:3000/workflows/178/content_blobs/1050452917",
"size": 732
}
],
"creators": [
{
- "profile": "/people/396",
+ "profile": "/people/1039987477",
"family_name": "One",
"given_name": "Some",
"affiliation": "University of Somewhere",
@@ -99,7 +99,7 @@
"creators": {
"data": [
{
- "id": "396",
+ "id": "1039987477",
"type": "people"
}
]
@@ -107,7 +107,7 @@
"submitter": {
"data": [
{
- "id": "397",
+ "id": "1039987478",
"type": "people"
}
]
@@ -115,11 +115,11 @@
"people": {
"data": [
{
- "id": "396",
+ "id": "1039987477",
"type": "people"
},
{
- "id": "397",
+ "id": "1039987478",
"type": "people"
}
]
@@ -127,7 +127,7 @@
"projects": {
"data": [
{
- "id": "407",
+ "id": "1022251549",
"type": "projects"
}
]
@@ -135,7 +135,7 @@
"investigations": {
"data": [
{
- "id": "84",
+ "id": "973654914",
"type": "investigations"
}
]
@@ -143,7 +143,7 @@
"studies": {
"data": [
{
- "id": "84",
+ "id": "1060384968",
"type": "studies"
}
]
@@ -151,7 +151,7 @@
"assays": {
"data": [
{
- "id": "84",
+ "id": "1035386752",
"type": "assays"
}
]
@@ -159,7 +159,7 @@
"publications": {
"data": [
{
- "id": "84",
+ "id": "237",
"type": "publications"
}
]
@@ -186,14 +186,14 @@
}
},
"links": {
- "self": "/workflows/109?version=1"
+ "self": "/workflows/178?version=1"
},
"meta": {
- "created": "2023-06-14T10:43:21.000Z",
- "modified": "2023-06-14T10:43:21.000Z",
+ "created": "2024-06-20T12:36:51.000Z",
+ "modified": "2024-06-20T12:36:51.000Z",
"api_version": "0.3",
"base_url": "http://localhost:3000",
- "uuid": "3440eef0-ecce-013b-a2d8-000c29a94011"
+ "uuid": "b13a3450-112f-013d-1f9d-0a81884ed284"
}
},
"jsonapi": {
diff --git a/test/factories/sample_attributes.rb b/test/factories/sample_attributes.rb
index de36f107c7..9aad6646f9 100644
--- a/test/factories/sample_attributes.rb
+++ b/test/factories/sample_attributes.rb
@@ -50,7 +50,7 @@
factory(:string_sample_attribute_with_description_and_pid, parent: :sample_attribute) do
association :sample_attribute_type, factory: :string_sample_attribute_type
description { "sample_attribute_description" }
- pid { "sample_attribute:pid" }
+ pid { "sample-attribute:pid" }
required { true }
end
end
diff --git a/test/fixtures/files/mocking/nfcore_pipelines_trunc.json b/test/fixtures/files/mocking/nfcore_pipelines_trunc.json
index f8866a417b..05bc516e8c 100644
--- a/test/fixtures/files/mocking/nfcore_pipelines_trunc.json
+++ b/test/fixtures/files/mocking/nfcore_pipelines_trunc.json
@@ -1653,6 +1653,14 @@
}
}
]
+ },
+ {
+ "name": "archived",
+ "archived": true
+ },
+ {
+ "name": "disabled",
+ "disabled": true
}
]
}
\ No newline at end of file
diff --git a/test/fixtures/files/upload_json_sample_type_template/invalid_attribute_type_templates.json b/test/fixtures/files/upload_json_sample_type_template/invalid_attribute_type_templates.json
new file mode 100644
index 0000000000..8f1f30e98e
--- /dev/null
+++ b/test/fixtures/files/upload_json_sample_type_template/invalid_attribute_type_templates.json
@@ -0,0 +1,41 @@
+{
+ "data": [
+ {
+ "metadata": {
+ "name": "Source - Invalid template",
+ "group": "ISA Test",
+ "group_order": 1,
+ "temporary_name": "1_Source - Invalid template",
+ "version": "1.0.0",
+ "isa_config": "isaconfig-default_v2015-07-02/studySample.xml",
+ "isa_measurement_type": null,
+ "isa_technology_type": null,
+ "isa_protocol_type": null,
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "study source"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Source Name",
+ "description": "Sources are considered as the starting biological material used in a study.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "source"
+ },
+ {
+ "iri": null,
+ "name": "Source Characteristic 1",
+ "description": "A characteristic of the source.",
+ "dataType": "Invalid String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "source_characteristic"
+ }
+ ]
+ }
+ ]
+}
diff --git a/test/fixtures/files/upload_json_sample_type_template/invalid_isa_tag_templates.json b/test/fixtures/files/upload_json_sample_type_template/invalid_isa_tag_templates.json
new file mode 100644
index 0000000000..861d5f38ee
--- /dev/null
+++ b/test/fixtures/files/upload_json_sample_type_template/invalid_isa_tag_templates.json
@@ -0,0 +1,41 @@
+{
+ "data": [
+ {
+ "metadata": {
+ "name": "Source - Invalid template",
+ "group": "ISA Test",
+ "group_order": 1,
+ "temporary_name": "1_Source - Invalid template",
+ "version": "1.0.0",
+ "isa_config": "isaconfig-default_v2015-07-02/studySample.xml",
+ "isa_measurement_type": null,
+ "isa_technology_type": null,
+ "isa_protocol_type": null,
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "study source"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Source Name",
+ "description": "Sources are considered as the starting biological material used in a study.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "invalid_source"
+ },
+ {
+ "iri": null,
+ "name": "Source Characteristic 1",
+ "description": "A characteristic of the source.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "source_characteristic"
+ }
+ ]
+ }
+ ]
+}
diff --git a/test/fixtures/files/upload_json_sample_type_template/test_templates.json b/test/fixtures/files/upload_json_sample_type_template/test_templates.json
new file mode 100644
index 0000000000..ce4e2f20cc
--- /dev/null
+++ b/test/fixtures/files/upload_json_sample_type_template/test_templates.json
@@ -0,0 +1,236 @@
+{
+ "data": [
+ {
+ "metadata": {
+ "name": "Source - ISA Test template",
+ "group": "ISA Test",
+ "group_order": 1,
+ "temporary_name": "1_Source - ISA Test template",
+ "version": "1.0.0",
+ "isa_config": "isaconfig-default_v2015-07-02/studySample.xml",
+ "isa_measurement_type": null,
+ "isa_technology_type": null,
+ "isa_protocol_type": null,
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "study source"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Source Name",
+ "description": "Sources are considered as the starting biological material used in a study.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "source"
+ },
+ {
+ "iri": null,
+ "name": "Source Characteristic 1",
+ "description": "A characteristic of the source.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "source_characteristic"
+ }
+ ]
+ },
+ {
+ "metadata": {
+ "name": "Sample - ISA Test template",
+ "group": "ISA Test",
+ "group_order": 2,
+ "temporary_name": "2_Sample - ISA Test template",
+ "version": "1.0.0",
+ "isa_config": "isaconfig-default_v2015-07-02/studySample.xml",
+ "isa_measurement_type": "Sample",
+ "isa_technology_type": null,
+ "isa_protocol_type": "protocol with samples as outputs",
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "study sample"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Input",
+ "description": "Registered Samples in the platform used as input for this protocol.",
+ "dataType": "Sample multi attribute type 1",
+ "required": true,
+ "isaTag": null
+ },
+ {
+ "iri": null,
+ "name": "Name of a protocol with samples as outputs",
+ "description": "Type of experimental step that generates samples as outputs from the study sources.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "protocol"
+ },
+ {
+ "iri": null,
+ "name": "Name of protocol parameter 1",
+ "description": "A parameter for the protocol.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "parameter_value"
+ },
+ {
+ "iri": null,
+ "name": "Sample Name",
+ "description": "Samples are considered as biological material sampled from sources and used in the study.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "sample"
+ },
+ {
+ "iri": null,
+ "name": "Sample Characteristic 1",
+ "description": "A characteristic of the sample.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "sample_characteristic"
+ }
+ ]
+ },
+ {
+ "metadata": {
+ "name": "Material output assay - ISA Test template",
+ "group": "ISA Test",
+ "group_order": 3,
+ "temporary_name": "3_Material output assay - ISA Test template",
+ "version": "1.0.0",
+ "isa_config": "none",
+ "isa_measurement_type": "any",
+ "isa_technology_type": "any",
+ "isa_protocol_type": "protocol with material output",
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "assay - material"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Input",
+ "description": "Registered Samples in the platform used as input for this protocol.",
+ "dataType": "Sample multi attribute type 1",
+ "required": true,
+ "isaTag": null
+ },
+ {
+ "iri": null,
+ "name": "Name of a protocol with material output",
+ "description": "Type of assay or experimental step performed that generates a material output.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "protocol"
+ },
+ {
+ "iri": null,
+ "name": "Name of protocol parameter 1",
+ "description": "A parameter for the protocol.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "parameter_value"
+ },
+ {
+ "iri": null,
+ "name": "Output material Name",
+ "description": "Name of the major material output resulting from the application of the protocol.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "other_material"
+ },
+ {
+ "iri": null,
+ "name": "Output material characteristic 1",
+ "description": "Characteristic 1 of the output material.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "other_material_characteristic"
+ }
+ ]
+ },
+ {
+ "metadata": {
+ "name": "Data file output assay - ISA Test template",
+ "group": "ISA Test",
+ "group_order": 4,
+ "temporary_name": "4_Data file output assay - ISA Test template",
+ "version": "1.0.0",
+ "isa_config": "none",
+ "isa_measurement_type": "any",
+ "isa_technology_type": "any",
+ "isa_protocol_type": "protocol with data file output",
+ "repo_schema_id": "none",
+ "organism": "any",
+ "level": "assay - data file"
+ },
+ "data": [
+ {
+ "iri": null,
+ "name": "Input",
+ "description": "Registered Samples in the platform used as input for this protocol.",
+ "dataType": "Sample multi attribute type 1",
+ "required": true,
+ "isaTag": null
+ },
+ {
+ "iri": null,
+ "name": "Name of a protocol with data file output",
+ "description": "Type of assay or experimental step performed that generates a data file output.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "protocol"
+ },
+ {
+ "iri": null,
+ "name": "Name of protocol parameter 1",
+ "description": "A parameter for the protocol.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "data_file_comment"
+ },
+ {
+ "iri": null,
+ "name": "Data file Name",
+ "description": "Name of the major data file output resulting from the application of the protocol.",
+ "dataType": "String attribute type 1",
+ "title": true,
+ "required": true,
+ "isaTag": "data_file"
+ },
+ {
+ "iri": null,
+ "name": "Data file characteristic 1",
+ "description": "Characteristic 1 of the data file output.",
+ "dataType": "String attribute type 1",
+ "required": true,
+ "ontology": null,
+ "CVList": null,
+ "isaTag": "data_file_comment"
+ }
+ ]
+ }
+ ]
+}
diff --git a/test/fixtures/files/upload_single_page/03_combo_update_samples_spreadsheet.xlsx b/test/fixtures/files/upload_single_page/03_combo_update_samples_spreadsheet.xlsx
index 357e00d721..18e3038622 100644
Binary files a/test/fixtures/files/upload_single_page/03_combo_update_samples_spreadsheet.xlsx and b/test/fixtures/files/upload_single_page/03_combo_update_samples_spreadsheet.xlsx differ
diff --git a/test/fixtures/files/upload_single_page/04_combo_update_assay_samples_spreadsheet.xlsx b/test/fixtures/files/upload_single_page/04_combo_update_assay_samples_spreadsheet.xlsx
index fbc99d30c1..2e29324ac6 100644
Binary files a/test/fixtures/files/upload_single_page/04_combo_update_assay_samples_spreadsheet.xlsx and b/test/fixtures/files/upload_single_page/04_combo_update_assay_samples_spreadsheet.xlsx differ
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/FETCH_HEAD b/test/fixtures/git/nf-core-rnaseq/_git/FETCH_HEAD
index 007f9d59e1..4329f7922f 100644
--- a/test/fixtures/git/nf-core-rnaseq/_git/FETCH_HEAD
+++ b/test/fixtures/git/nf-core-rnaseq/_git/FETCH_HEAD
@@ -1,6 +1 @@
-88562f8745302ec159679369326c6db5e4bd6e3b not-for-merge branch 'TEMPLATE' of https://github.com/nf-core/rnaseq.git
-825345ea0c17b3962066a181fc5b5e405bfee5aa not-for-merge branch 'dev' of https://github.com/nf-core/rnaseq.git
-3643a94411b65f42bce5357c5015603099556ad9 not-for-merge branch 'master' of https://github.com/nf-core/rnaseq.git
-ccfb140d0f21d144e65498edc098f89c0d66d961 not-for-merge branch 'nf-core-template-merge-1.13.2' of https://github.com/nf-core/rnaseq.git
-88562f8745302ec159679369326c6db5e4bd6e3b not-for-merge branch 'nf-core-template-merge-1.13.3' of https://github.com/nf-core/rnaseq.git
-5681aa9012608ed67c67073ccee07b27586ee36a not-for-merge branch 'pytest-workflow' of https://github.com/nf-core/rnaseq.git
+b89fac32650aacc86fcda9ee77e00612a1d77066 branch 'master' of https://github.com/nf-core/rnaseq
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/ORIG_HEAD b/test/fixtures/git/nf-core-rnaseq/_git/ORIG_HEAD
new file mode 100644
index 0000000000..cc7c16f3fc
--- /dev/null
+++ b/test/fixtures/git/nf-core-rnaseq/_git/ORIG_HEAD
@@ -0,0 +1 @@
+3643a94411b65f42bce5357c5015603099556ad9
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/index b/test/fixtures/git/nf-core-rnaseq/_git/index
new file mode 100644
index 0000000000..4e51a11ae8
Binary files /dev/null and b/test/fixtures/git/nf-core-rnaseq/_git/index differ
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/HEAD b/test/fixtures/git/nf-core-rnaseq/_git/logs/HEAD
new file mode 100644
index 0000000000..bd08a33ee1
--- /dev/null
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/HEAD
@@ -0,0 +1,2 @@
+3643a94411b65f42bce5357c5015603099556ad9 3643a94411b65f42bce5357c5015603099556ad9 Finn Bacall 1717586509 +0100 checkout: moving from master to master
+3643a94411b65f42bce5357c5015603099556ad9 b89fac32650aacc86fcda9ee77e00612a1d77066 Finn Bacall 1717586512 +0100 pull origin master: Fast-forward
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/heads/master b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/heads/master
new file mode 100644
index 0000000000..f9a647c9c6
--- /dev/null
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/heads/master
@@ -0,0 +1 @@
+3643a94411b65f42bce5357c5015603099556ad9 b89fac32650aacc86fcda9ee77e00612a1d77066 Finn Bacall 1717586512 +0100 pull origin master: Fast-forward
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/TEMPLATE b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/TEMPLATE
index a59049b106..fd18dddb9a 100644
--- a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/TEMPLATE
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/TEMPLATE
@@ -1,2 +1,3 @@
0000000000000000000000000000000000000000 e9f315d51e88f55398b21b4ff0f4d5e04a7c1dc4 Finn Bacall 1616508146 +0000 fetch origin
e9f315d51e88f55398b21b4ff0f4d5e04a7c1dc4 88562f8745302ec159679369326c6db5e4bd6e3b Finn Bacall 1617012765 +0100 fetch origin
+88562f8745302ec159679369326c6db5e4bd6e3b eecf64e1f291a1aedbb23d96e95a3cdadd4640dc Finn Bacall 1717582518 +0100 fetch: fast-forward
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/arm b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/arm
new file mode 100644
index 0000000000..4107e477eb
--- /dev/null
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/arm
@@ -0,0 +1 @@
+0000000000000000000000000000000000000000 d2f00635cee40ea206e53d2e49a7119bc9482307 Finn Bacall 1717582518 +0100 fetch: storing head
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/change_testing_logic b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/change_testing_logic
new file mode 100644
index 0000000000..962c24500e
--- /dev/null
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/change_testing_logic
@@ -0,0 +1 @@
+0000000000000000000000000000000000000000 21fe86c80fa9e57144522944a01405f95c7e58b0 Finn Bacall 1717582518 +0100 fetch: storing head
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/dev b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/dev
index 387e8ebbd9..27a7e6eb94 100644
--- a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/dev
+++ b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/dev
@@ -1 +1,2 @@
0000000000000000000000000000000000000000 825345ea0c17b3962066a181fc5b5e405bfee5aa Finn Bacall 1616508146 +0000 fetch origin
+825345ea0c17b3962066a181fc5b5e405bfee5aa 21095f381e70b4b73dc392c36318218044a8bc95 Finn Bacall 1717582518 +0100 fetch: fast-forward
diff --git a/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/document_fastp_sampling b/test/fixtures/git/nf-core-rnaseq/_git/logs/refs/remotes/origin/document_fastp_sampling
new file mode 100644
index 0000000000..993008b311
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diff --git a/test/fixtures/git/nf-core-rnaseq/_git/refs/remotes/origin/fix_salmon_args b/test/fixtures/git/nf-core-rnaseq/_git/refs/remotes/origin/fix_salmon_args
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new file mode 100644
index 0000000000..489476ffc7
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diff --git a/test/fixtures/git/nf-core-rnaseq/_git/refs/tags/3.9 b/test/fixtures/git/nf-core-rnaseq/_git/refs/tags/3.9
new file mode 100644
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diff --git a/test/functional/git_repositories_controller_test.rb b/test/functional/git_repositories_controller_test.rb
index dfb3dbdd8d..f105f85190 100644
--- a/test/functional/git_repositories_controller_test.rb
+++ b/test/functional/git_repositories_controller_test.rb
@@ -51,12 +51,13 @@ class GitRepositoriesControllerTest < ActionController::TestCase
"ref" => "refs/remotes/origin/symlink",
"sha" => "728337a507db00b8b8ba9979330a4f53d6d43b18"}],
"tags" =>
- [{ "name" => "v0.01",
- "ref" => "refs/tags/v0.01",
- "sha" => "3f2c23e92da3ccbc89d7893b4af6039e66bdaaaf" },
- { "name" => "v0.02",
+ [{ "name" => "v0.02",
"ref" => "refs/tags/v0.02",
- "sha" => "94ae9926a824ebe809a9e9103cbdb1d5c5f98608" }] }
+ "sha" => "94ae9926a824ebe809a9e9103cbdb1d5c5f98608" },
+ { "name" => "v0.01",
+ "ref" => "refs/tags/v0.01",
+ "sha" => "3f2c23e92da3ccbc89d7893b4af6039e66bdaaaf" }
+ ]}
assert_equal expected, res
end
diff --git a/test/functional/homes_controller_test.rb b/test/functional/homes_controller_test.rb
index 1240267048..7798174efe 100644
--- a/test/functional/homes_controller_test.rb
+++ b/test/functional/homes_controller_test.rb
@@ -719,6 +719,54 @@ class HomesControllerTest < ActionController::TestCase
end
+ test 'Show aliases in search options' do
+ original_load_path = I18n.load_path
+ I18n.load_path += Dir[Rails.root.join('test', 'config', 'translation_override.en.yml')]
+ I18n.backend.load_translations
+ with_config_values({ isa_json_compliance_enabled: true, solr_enabled: true }) do
+ get :index
+ assert_response :success
+ assert_select 'select#search_type' do
+ assert_select 'option', text: 'Investigation tests', count: 1
+ assert_select 'option', text: 'Study tests', count: 1
+ assert_select 'option', text: 'Assay tests', count: 1
+ assert_select 'option', text: 'Data file tests', count: 1
+ assert_select 'option', text: 'Document tests', count: 1
+ assert_select 'option', text: 'SOP_test', count: 1 # this is an exception, the alias is not in the translation file
+ assert_select 'option', text: 'Presentation tests', count: 1
+ assert_select 'option', text: 'Event tests', count: 1
+ assert_select 'option', text: 'Collection tests', count: 1
+ assert_select 'option', text: 'Sample tests', count: 1
+ assert_select 'option', text: 'Sample type tests', count: 1
+ assert_select 'option', text: 'Template tests', count: 1
+ assert_select 'option', text: 'Person tests', count: 1
+ assert_select 'option', text: 'Project tests', count: 1
+ assert_select 'option', text: 'Institution tests', count: 1
+ assert_select 'option', text: 'Programme tests', count: 1
+
+ # Making sure the default values are not shown
+ assert_select 'option', text: 'Investigations', count: 0
+ assert_select 'option', text: 'Studies', count: 0
+ assert_select 'option', text: 'Assays', count: 0
+ assert_select 'option', text: 'Data files', count: 0
+ assert_select 'option', text: 'Documents', count: 0
+ assert_select 'option', text: 'SOP', count: 0
+ assert_select 'option', text: 'Presentations', count: 0
+ assert_select 'option', text: 'Events', count: 0
+ assert_select 'option', text: 'Collections', count: 0
+ assert_select 'option', text: 'Samples', count: 0
+ assert_select 'option', text: 'Sample types', count: 0
+ assert_select 'option', text: 'Templates', count: 0
+ assert_select 'option', text: 'People', count: 0
+ assert_select 'option', text: 'Projects', count: 0
+ assert_select 'option', text: 'Institutions', count: 0
+ assert_select 'option', text: 'Programmes', count: 0
+ end
+ end
+ I18n.load_path = original_load_path
+ I18n.backend.load_translations
+ end
+
test 'get dataset jsonld from index' do
get :index, format: :jsonld
assert_response :success
diff --git a/test/functional/isa_assays_controller_test.rb b/test/functional/isa_assays_controller_test.rb
index ba746b6d70..1ad8afd286 100644
--- a/test/functional/isa_assays_controller_test.rb
+++ b/test/functional/isa_assays_controller_test.rb
@@ -76,8 +76,7 @@ def setup
end
isa_assay = assigns(:isa_assay)
assert_redirected_to controller: 'single_pages', action: 'show', id: isa_assay.assay.projects.first.id,
- params: { notice: 'The ISA assay was created successfully!',
- item_type: 'assay', item_id: Assay.last.id }
+ params: { item_type: 'assay', item_id: Assay.last.id }
sample_types = SampleType.last(2)
title = sample_types[0].sample_attributes.detect(&:is_title).title
@@ -139,7 +138,7 @@ def setup
assay = FactoryBot.create(:assay, study:, contributor: person)
put :update, params: { id: assay, isa_assay: { assay: { title: 'assay title' } } }
assert_redirected_to single_page_path(id: project, item_type: 'assay', item_id: assay.id)
- assert flash[:error].include?('Resource not found.')
+ assert flash[:error].include?('Sample type not found.')
assay = FactoryBot.create(:assay, study:, sample_type: assay_type, contributor: person)
@@ -359,7 +358,7 @@ def setup
end
isa_assay = assigns(:isa_assay)
- assert_redirected_to single_page_path(id: project, item_type: 'assay', item_id: isa_assay.assay.id, notice: 'The ISA assay was created successfully!')
+ assert_redirected_to single_page_path(id: project, item_type: 'assay', item_id: isa_assay.assay.id)
assert_equal isa_assay.assay.sample_type.previous_linked_sample_type, study.sample_types.second
assert_equal isa_assay.assay.next_linked_child_assay, end_assay
@@ -455,7 +454,7 @@ def setup
end
isa_assay = assigns(:isa_assay)
- assert_redirected_to single_page_path(id: project, item_type: 'assay', item_id: isa_assay.assay.id, notice: 'The ISA assay was created successfully!')
+ assert_redirected_to single_page_path(id: project, item_type: 'assay', item_id: isa_assay.assay.id)
assert_equal begin_assay.previous_linked_sample_type, study.sample_types.second
assert_equal isa_assay.assay.sample_type.previous_linked_sample_type, begin_assay.sample_type
@@ -619,7 +618,7 @@ def setup
# New assay stream should have position 1 and is of type 'number'
assert_select 'input[type=number][value=1]#isa_assay_assay_position', count: 1
- assay_stream2 = FactoryBot.create(:assay_stream, study: , contributor: person, position: 5)
+ FactoryBot.create(:assay_stream, study: , contributor: person, position: 5)
get :new, params: { study_id: study.id, is_assay_stream: true }
assert_response :success
# New assay stream should have position 6 and is of type 'number'
diff --git a/test/functional/sample_controlled_vocabs_controller_test.rb b/test/functional/sample_controlled_vocabs_controller_test.rb
index f8a450e584..4abdce9459 100644
--- a/test/functional/sample_controlled_vocabs_controller_test.rb
+++ b/test/functional/sample_controlled_vocabs_controller_test.rb
@@ -70,11 +70,10 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_difference('SampleControlledVocab.count') do
assert_difference('SampleControlledVocabTerm.count', 2) do
post :create, params: { sample_controlled_vocab: { title: 'fish', description: 'About fish',
- sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'goldfish', _destroy: '0' },
- '1' => { label: 'guppy', _destroy: '0' }
- }
- } }
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'goldfish', _destroy: '0' },
+ '1' => { label: 'guppy', _destroy: '0' }
+ } } }
end
end
assert cv = assigns(:sample_controlled_vocab)
@@ -89,11 +88,10 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_no_difference('SampleControlledVocab.count') do
assert_no_difference('SampleControlledVocabTerm.count') do
post :create, params: { sample_controlled_vocab: { title: 'fish', description: 'About fish',
- sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'goldfish', _destroy: '0' },
- '1' => { label: 'guppy', _destroy: '0' }
- }
- } }
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'goldfish', _destroy: '0' },
+ '1' => { label: 'guppy', _destroy: '0' }
+ } } }
end
end
assert_response :redirect
@@ -105,11 +103,10 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_no_difference('SampleControlledVocab.count') do
assert_no_difference('SampleControlledVocabTerm.count', 2) do
post :create, params: { sample_controlled_vocab: { title: 'fish', description: 'About fish',
- sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'goldfish', _destroy: '0' },
- '1' => { label: 'guppy', _destroy: '0' }
- }
- } }
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'goldfish', _destroy: '0' },
+ '1' => { label: 'guppy', _destroy: '0' }
+ } } }
end
end
assert_response :redirect
@@ -123,14 +120,16 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_no_difference('SampleControlledVocab.count') do
assert_no_difference('SampleControlledVocabTerm.count') do
put :update, params: { id: cv, sample_controlled_vocab: { title: 'the apples', description: 'About apples',
- sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'Granny Smith', _destroy: '0', id: term_ids[0] },
- '1' => { _destroy: '1', id: term_ids[1] },
- '2' => { label: 'Bramley', _destroy: '0', id: term_ids[2] },
- '3' => { label: 'Cox', _destroy: '0', id: term_ids[3] },
- '4' => { label: 'Jazz', _destroy: '0' }
- }
- } }
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'Granny Smith', _destroy: '0',
+ id: term_ids[0] },
+ '1' => { _destroy: '1', id: term_ids[1] },
+ '2' => { label: 'Bramley', _destroy: '0',
+ id: term_ids[2] },
+ '3' => { label: 'Cox', _destroy: '0',
+ id: term_ids[3] },
+ '4' => { label: 'Jazz', _destroy: '0' }
+ } } }
end
end
assert cv = assigns(:sample_controlled_vocab)
@@ -147,14 +146,16 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_no_difference('SampleControlledVocab.count') do
assert_no_difference('SampleControlledVocabTerm.count') do
put :update, params: { id: cv, sample_controlled_vocab: { title: 'the apples', description: 'About apples',
- sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'Granny Smith', _destroy: '0', id: term_ids[0] },
- '1' => { _destroy: '1', id: term_ids[1] },
- '2' => { label: 'Bramley', _destroy: '0', id: term_ids[2] },
- '3' => { label: 'Cox', _destroy: '0', id: term_ids[3] },
- '4' => { label: 'Jazz', _destroy: '0' }
- }
- } }
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'Granny Smith', _destroy: '0',
+ id: term_ids[0] },
+ '1' => { _destroy: '1', id: term_ids[1] },
+ '2' => { label: 'Bramley', _destroy: '0',
+ id: term_ids[2] },
+ '3' => { label: 'Cox', _destroy: '0',
+ id: term_ids[3] },
+ '4' => { label: 'Jazz', _destroy: '0' }
+ } } }
end
end
assert_response :redirect
@@ -294,12 +295,12 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
login_as(person)
cv = FactoryBot.create(:ontology_sample_controlled_vocab)
assert cv.ontology_based?
- get :edit, params:{id: cv.id}
+ get :edit, params:{ id: cv.id }
assert_response :success
assert_select 'table#new-terms' do
# 3 hidden fields for each field, and an extra one for the remove button default
- assert_select 'tr.sample-cv-term input[type=hidden]', count:cv.sample_controlled_vocab_terms.length * 4
+ assert_select 'tr.sample-cv-term input[type=hidden]', count:cv.sample_controlled_vocab_terms.length * 5
assert_select 'div.disabled-cv-field', count: cv.sample_controlled_vocab_terms.length * 3
end
@@ -310,7 +311,7 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
login_as(person)
cv = FactoryBot.create(:apples_sample_controlled_vocab)
refute cv.ontology_based?
- get :edit, params:{id: cv.id}
+ get :edit, params:{ id: cv.id }
assert_response :success
assert_select 'table#new-terms' do
@@ -329,8 +330,8 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
login_as(person)
VCR.use_cassette('ols/fetch_obo_bad_term') do
get :fetch_ols_terms_html, params: { source_ontology_id: 'go',
- root_uris: 'http://purl.obolibrary.org/obo/banana',
- include_root_term: '1' }
+ root_uris: 'http://purl.obolibrary.org/obo/banana',
+ include_root_term: '1' }
assert_response :unprocessable_entity
assert_equal '404 Not Found', response.body
@@ -348,18 +349,29 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_response :success
assert_select 'tr.sample-cv-term', count: 4
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri:not([value])'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]','plant cell papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090397'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]','stigma papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090396'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]','leaf papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090705'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]','trichome papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]',
+'plant cell papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090397'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]',
+'stigma papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090396'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]',
+'leaf papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090705'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]',
+'trichome papilla'
end
test 'create with root uris' do
@@ -369,10 +381,11 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
post :create, params: { sample_controlled_vocab: { title: 'plant_cell_papilla and haustorium', description: 'multiple root uris',
ols_root_term_uris: 'http://purl.obolibrary.org/obo/GO_0090395, http://purl.obolibrary.org/obo/GO_0085035',
sample_controlled_vocab_terms_attributes: {
- '0' => { label: 'plant cell papilla', iri:'http://purl.obolibrary.org/obo/GO_0090395', parent_iri:'', _destroy: '0' },
- '1' => { label: 'haustorium', iri:'http://purl.obolibrary.org/obo/GO_0085035', parent_iri:'', _destroy: '0' }
- }
- } }
+ '0' => { label: 'plant cell papilla',
+ iri: 'http://purl.obolibrary.org/obo/GO_0090395', parent_iri:'', _destroy: '0' },
+ '1' => { label: 'haustorium',
+ iri: 'http://purl.obolibrary.org/obo/GO_0085035', parent_iri:'', _destroy: '0' }
+ } } }
end
end
assert cv = assigns(:sample_controlled_vocab)
@@ -381,8 +394,10 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_equal 'multiple root uris', cv.description
assert_equal 2, cv.sample_controlled_vocab_terms.count
assert_equal ['plant cell papilla','haustorium'], cv.labels
- assert_equal ['http://purl.obolibrary.org/obo/GO_0090395','http://purl.obolibrary.org/obo/GO_0085035'], cv.sample_controlled_vocab_terms.collect(&:iri)
- assert_equal 'http://purl.obolibrary.org/obo/GO_0090395, http://purl.obolibrary.org/obo/GO_0085035', cv.ols_root_term_uris
+ assert_equal ['http://purl.obolibrary.org/obo/GO_0090395','http://purl.obolibrary.org/obo/GO_0085035'],
+cv.sample_controlled_vocab_terms.collect(&:iri)
+ assert_equal 'http://purl.obolibrary.org/obo/GO_0090395, http://purl.obolibrary.org/obo/GO_0085035',
+cv.ols_root_term_uris
end
test 'fetch ols terms as HTML with multiple root uris and root term included' do
@@ -398,25 +413,41 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_response :success
assert_select 'tr.sample-cv-term', count: 6
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri:not([value])'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]','plant cell papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090397'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]','stigma papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090396'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]','leaf papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090705'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]','trichome papilla'
-
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_4_iri[value=?]','http://purl.obolibrary.org/obo/GO_0085035'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]',
+'plant cell papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090397'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]',
+'stigma papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090396'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]',
+'leaf papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090705'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]',
+'trichome papilla'
+
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_4_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0085035'
assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_4_parent_iri:not([value])'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_4_label[value=?]','haustorium'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_iri[value=?]','http://purl.obolibrary.org/obo/GO_0085041'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0085035'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_label[value=?]','arbuscule'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_4_label[value=?]',
+'haustorium'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0085041'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0085035'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_5_label[value=?]',
+'arbuscule'
end
@@ -434,19 +465,31 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_response :success
assert_select 'tr.sample-cv-term', count: 4
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090397'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]','stigma papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090396'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]','leaf papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090705'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]','trichome papilla'
-
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]','http://purl.obolibrary.org/obo/GO_0085041'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0085035'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]','arbuscule'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090397'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]',
+'stigma papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090396'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]',
+'leaf papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090705'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]',
+'trichome papilla'
+
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0085041'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0085035'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_3_label[value=?]',
+'arbuscule'
end
@@ -471,19 +514,28 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
login_as(person)
VCR.use_cassette('ols/fetch_obo_plant_cell_papilla') do
get :fetch_ols_terms_html, params: { source_ontology_id: 'go',
- root_uris: 'http://purl.obolibrary.org/obo/GO_0090395' }
+ root_uris: 'http://purl.obolibrary.org/obo/GO_0090395' }
end
assert_response :success
assert_select 'tr.sample-cv-term', count: 3
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090397'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]','stigma papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090396'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]','leaf papilla'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090705'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]','http://purl.obolibrary.org/obo/GO_0090395'
- assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]','trichome papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090397'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_0_label[value=?]',
+'stigma papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090396'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_1_label[value=?]',
+'leaf papilla'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090705'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_parent_iri[value=?]',
+'http://purl.obolibrary.org/obo/GO_0090395'
+ assert_select 'input[type=hidden]#sample_controlled_vocab_sample_controlled_vocab_terms_attributes_2_label[value=?]',
+'trichome papilla'
end
test 'can access typeahead with samples disabled' do
@@ -498,4 +550,29 @@ class SampleControlledVocabsControllerTest < ActionController::TestCase
assert_equal 'Sample collections', res.first['text']
end
end
+
+ test 'should not duplicate terms when updating' do
+ person = FactoryBot.create(:person)
+ login_as(person)
+ cv = FactoryBot.create(:apples_sample_controlled_vocab)
+ term_ids = cv.sample_controlled_vocab_terms.map(&:id)
+
+ assert_no_difference('SampleControlledVocabTerm.count') do
+ put :update, params: { id: cv, sample_controlled_vocab: { title: 'the apples', description: 'About apples',
+ sample_controlled_vocab_terms_attributes: {
+ '0' => { label: 'Granny Smith', _destroy: '0',
+ id: term_ids[0] },
+ '1' => { label: 'Red Delicious', _destroy: '0',
+ id: term_ids[1] },
+ '2' => { label: 'Bramley', _destroy: '0',
+ id: term_ids[2] },
+ '3' => { label: 'Cox', _destroy: '0',
+ id: term_ids[3] },
+ '4' => { label: 'Granny Smith', _destroy: '0' }
+ } } }
+ end
+ assert_response :unprocessable_entity
+ assert_template :edit
+ assert flash[:error] = 'Validation failed: Labels have already been taken'
+ end
end
diff --git a/test/functional/single_pages_controller_test.rb b/test/functional/single_pages_controller_test.rb
index 7350c73411..e7fdb075e2 100644
--- a/test/functional/single_pages_controller_test.rb
+++ b/test/functional/single_pages_controller_test.rb
@@ -156,16 +156,45 @@ def setup
sample_type_id: source_sample_type.id }
response_data = JSON.parse(response.body)['uploadData']
+ db_samples = response_data['dbSamples']
+ updated_samples = response_data['updateSamples']
+ new_samples = response_data['newSamples']
+ possible_duplicates = response_data['possibleDuplicates']
+
assert_response :success
+ assert_equal db_samples.size, 5
+ assert_equal updated_samples.size, 2
+ assert_equal new_samples.size, 2
+ assert_equal possible_duplicates.size, 1
- updated_samples = response_data['updateSamples']
- assert(updated_samples.size, 2)
+ post :upload_samples, as: :html, params: { file:, project_id: project.id,
+ sample_type_id: source_sample_type.id }
- new_samples = response_data['newSamples']
- assert(new_samples.size, 2)
+ assert_response :success
- possible_duplicates = response_data['possibleDuplicates']
- assert(possible_duplicates.size, 1)
+ assert_select 'table#create-samples-table', count: 1 do
+ assert_select "tbody tr", count: new_samples.size
+ end
+
+ assert_select 'table#update-samples-table', count: 1 do
+ update_sample_ids = updated_samples.map { |s| s['id'] }
+ update_sample_ids.map do |sample_id|
+ row_id_updated = "update-sample-#{sample_id}-updated"
+ assert_select "tr##{row_id_updated}", count: 1
+
+ row_id_original = "update-sample-#{sample_id}-original"
+ assert_select "tr##{row_id_original}", count: 1
+ end
+ end
+
+ assert_select 'table#duplicate-samples-table', count: 1 do
+ dup_sample_ids = possible_duplicates.map { |s| s['duplicate']['id'] }
+ dup_sample_ids.map do |sample_id|
+ row_id = "duplicate-sample-#{sample_id}"
+ assert_select "tr##{row_id}-1", count: 1
+ assert_select "tr##{row_id}-2", count: 1
+ end
+ end
end
end
@@ -182,16 +211,43 @@ def setup
sample_type_id: sample_collection_sample_type.id }
response_data = JSON.parse(response.body)['uploadData']
+ updated_samples = response_data['updateSamples']
+ new_samples = response_data['newSamples']
+ possible_duplicates = response_data['possibleDuplicates']
+
assert_response :success
+ assert_equal updated_samples.size, 2
+ assert_equal new_samples.size, 2
+ assert_equal possible_duplicates.size, 1
- updated_samples = response_data['updateSamples']
- assert(updated_samples.size, 2)
+ post :upload_samples, as: :html, params: { file:, project_id: project.id,
+ sample_type_id: sample_collection_sample_type.id }
- new_samples = response_data['newSamples']
- assert(new_samples.size, 2)
+ assert_response :success
- possible_duplicates = response_data['possibleDuplicates']
- assert(possible_duplicates.size, 1)
+ assert_select 'table#create-samples-table', count: 1 do
+ assert_select "tbody tr", count: new_samples.size
+ end
+
+ assert_select 'table#update-samples-table', count: 1 do
+ update_sample_ids = updated_samples.map { |s| s['id'] }
+ update_sample_ids.map do |sample_id|
+ row_id_updated = "update-sample-#{sample_id}-updated"
+ assert_select "tr##{row_id_updated}", count: 1
+
+ row_id_original = "update-sample-#{sample_id}-original"
+ assert_select "tr##{row_id_original}", count: 1
+ end
+ end
+
+ assert_select 'table#duplicate-samples-table', count: 1 do
+ dup_sample_ids = possible_duplicates.map { |s| s['duplicate']['id'] }
+ dup_sample_ids.map do |sample_id|
+ row_id = "duplicate-sample-#{sample_id}"
+ assert_select "tr##{row_id}-1", count: 1
+ assert_select "tr##{row_id}-2", count: 1
+ end
+ end
end
end
@@ -208,16 +264,91 @@ def setup
sample_type_id: assay_sample_type.id }
response_data = JSON.parse(response.body)['uploadData']
+ updated_samples = response_data['updateSamples']
+ new_samples = response_data['newSamples']
+ possible_duplicates = response_data['possibleDuplicates']
+
assert_response :success
+ assert_equal updated_samples.size, 2
+ assert_equal new_samples.size, 1
+ assert_equal possible_duplicates.size, 1
- updated_samples = response_data['updateSamples']
- assert(updated_samples.size, 2)
+ post :upload_samples, as: :html, params: { file:, project_id: project.id,
+ sample_type_id: assay_sample_type.id }
+ assert_response :success
+
+ assert_select 'table#create-samples-table', count: 1 do
+ assert_select "tbody tr", count: new_samples.size
+ end
+
+ assert_select 'table#update-samples-table', count: 1 do
+ update_sample_ids = updated_samples.map { |s| s['id'] }
+ update_sample_ids.map do |sample_id|
+ row_id_updated = "update-sample-#{sample_id}-updated"
+ assert_select "tr##{row_id_updated}", count: 1
+
+ row_id_original = "update-sample-#{sample_id}-original"
+ assert_select "tr##{row_id_original}", count: 1
+ end
+ end
+
+ assert_select 'table#duplicate-samples-table', count: 1 do
+ dup_sample_ids = possible_duplicates.map { |s| s['duplicate']['id'] }
+ dup_sample_ids.map do |sample_id|
+ row_id = "duplicate-sample-#{sample_id}"
+ assert_select "tr##{row_id}-1", count: 1
+ assert_select "tr##{row_id}-2", count: 1
+ end
+ end
+ end
+ end
+
+ test 'Should show permission conflicts for samples' do
+ with_config_value(:project_single_page_enabled, true) do
+ unauthorized_user = FactoryBot.create(:user)
+ login_as unauthorized_user
+ project, source_sample_type = setup_file_upload.values_at(
+ :project, :source_sample_type
+ )
+
+ file_path = 'upload_single_page/01_combo_update_sources_spreadsheet.xlsx'
+ file = fixture_file_upload(file_path, 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet')
+
+ post :upload_samples, as: :json, params: { file:, project_id: project.id,
+ sample_type_id: source_sample_type.id }
+
+ response_data = JSON.parse(response.body)['uploadData']
+ updated_samples = response_data['updateSamples']
+ unauthorized_samples = response_data['unauthorized_samples']
new_samples = response_data['newSamples']
- assert(new_samples.size, 1)
+
+ assert_response :success
+ assert_equal updated_samples.size, 0
+ assert_equal unauthorized_samples.size, 2
+ assert_equal new_samples.size, 2
possible_duplicates = response_data['possibleDuplicates']
assert(possible_duplicates.size, 1)
+
+ post :upload_samples, as: :html, params: { file:, project_id: project.id,
+ sample_type_id: source_sample_type.id }
+
+ assert_response :success
+
+ assert_select 'table#create-samples-table', count: 1 do
+ assert_select "tbody tr", count: new_samples.size
+ end
+
+ assert_select 'table#update-samples-table', count: 0
+
+ assert_select 'table#unauthorized-samples-table', count: 1 do
+ unauthorized_sample_ids = unauthorized_samples.map { |s| s['id'] }
+ unauthorized_sample_ids.map do |sample_id|
+ row_id = "unauthorized-sample-#{sample_id}"
+ assert_select "tr##{row_id}", count: 1
+ end
+ end
end
end
@@ -258,12 +389,12 @@ def setup_file_upload
FactoryBot.create(
:sample,
id: 10_010 + n,
- title: "source#{n}",
+ title: "source_#{n}",
sample_type: source_sample_type,
project_ids: [project.id],
contributor: person,
data: {
- 'Source Name': 'Source Name',
+ 'Source Name': "Source #{n}",
'Source Characteristic 1': 'Source Characteristic 1',
'Source Characteristic 2':
source_sample_type
diff --git a/test/functional/templates_controller_test.rb b/test/functional/templates_controller_test.rb
index 753d43a28c..566f16496f 100644
--- a/test/functional/templates_controller_test.rb
+++ b/test/functional/templates_controller_test.rb
@@ -623,6 +623,33 @@ class TemplatesControllerTest < ActionController::TestCase
end
end
+ test 'Should not see add new attribute button at template creation time' do
+ get :new
+ assert_response :success
+ assert_select 'a#add-attribute.hidden', text: /Add new attribute/, count: 1
+ end
+
+ test 'Should see add new attribute button at template edit time' do
+ my_template = FactoryBot.create(:isa_source_template, project_ids: @project_ids, contributor: @person)
+ get :edit, params: { id: my_template.id }
+ assert_response :success
+ assert_select 'a#add-attribute.hidden', text: /Add new attribute/, count: 0
+ end
+
+ test 'Should only be able link a new template to projects the current user is project admin of' do
+ project = FactoryBot.create(:project)
+ project_admin = FactoryBot.create(:project_administrator, project: project)
+ login_as(project_admin.user)
+ get :new
+ assert_response :success
+
+ # The project selector is a vue-component, which is not translated to html in the test environment
+ # Instead we check that the json data is present in 'project-selector-possibilities-json'
+ assert_select 'script#project-selector-possibilities-json', count: 1
+ options = "[{\"id\":#{project.id},\"text\":\"#{project.title}\"}]"
+ assert_select 'script#project-selector-possibilities-json', text: /#{options}/, count: 1
+ end
+
def create_template_from_parent_template(parent_template, person= @person, linked_sample_type= nil)
child_template_attributes = parent_template.template_attributes.map do |ta|
FactoryBot.create(:template_attribute, parent_attribute_id: ta.id, title: ta.title, isa_tag_id: ta.isa_tag_id, sample_attribute_type: ta.sample_attribute_type, is_title: ta.is_title, required: ta.required, sample_controlled_vocab: ta.sample_controlled_vocab, pos: ta.pos)
diff --git a/test/integration/nfcore_scraper_test.rb b/test/integration/nfcore_scraper_test.rb
index 5b5321aa73..37b46bd13c 100644
--- a/test/integration/nfcore_scraper_test.rb
+++ b/test/integration/nfcore_scraper_test.rb
@@ -25,10 +25,10 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
assert_equal bot, wf.contributor
assert_equal [project], wf.projects
assert_equal 'nf-core/rnaseq', wf.title
- assert_equal 'Nextflow RNA-Seq analysis pipeline, part of the nf-core community.', wf.description
+ assert_equal 'RNA sequencing analysis pipeline for gene/isoform quantification and extensive quality control.', wf.description
assert_equal 'MIT', wf.license
assert_equal 'nextflow.config', wf.main_workflow_path
- assert_equal '3.0', wf.git_version.name
+ assert_equal '3.13.2', wf.git_version.name
assert_equal %w[rna rna-seq], wf.tags.sort
end
end
@@ -67,10 +67,10 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
assert_equal bot, wf.contributor
assert_equal [project], wf.projects
assert_equal 'nf-core/rnaseq', wf.title
- assert_equal 'Nextflow RNA-Seq analysis pipeline, part of the nf-core community.', wf.description
+ assert_equal 'RNA sequencing analysis pipeline for gene/isoform quantification and extensive quality control.', wf.description
assert_equal 'MIT', wf.license
assert_equal 'nextflow.config', wf.main_workflow_path
- assert_equal '3.0', wf.git_version.name
+ assert_equal '3.13.2', wf.git_version.name
end
end
end
@@ -89,10 +89,10 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
contributor: bot,
projects: [project],
source_link_url: 'https://github.com/nf-core/rnaseq',
- git_version_attributes: { name: '3.0',
+ git_version_attributes: { name: '3.13.2',
git_repository_id: repos.first.id,
- ref: 'refs/tags/3.0',
- commit: '3643a94',
+ ref: 'refs/tags/3.13.2',
+ commit: 'a10f41a',
main_workflow_path: 'nextflow.config',
mutable: false })
@@ -117,16 +117,18 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
repos = [FactoryBot.create(:nfcore_remote_repository)]
# These are the available remote Git tags in the above repo:
- tags = ['1.0', '1.1', '1.2', '1.3', '1.4', '1.4.1', '1.4.2', '2.0', '3.0']
+ tags = ['1.0', '1.1', '1.2', '1.3', '1.4', '1.4.1', '1.4.2', '2.0', '3.0', '3.1', '3.2', '3.3', '3.4', '3.5',
+ '3.6', '3.7', '3.8', '3.8.1', '3.9', '3.10', '3.10.1', '3.11.0', '3.11.1', '3.11.2', '3.12.0', '3.13.1',
+ '3.13.0', '3.13.2']
existing = FactoryBot.create(:nfcore_git_workflow,
contributor: bot,
projects: [project],
source_link_url: 'https://github.com/nf-core/rnaseq',
- git_version_attributes: { name: '3.0',
+ git_version_attributes: { name: '1.0',
git_repository_id: repos.first.id,
- ref: 'refs/tags/3.0',
- commit: '3643a94',
+ ref: 'refs/tags/1.0',
+ commit: '44f1525',
main_workflow_path: 'nextflow.config',
mutable: false })
@@ -140,7 +142,7 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
refute scraped.empty?
assert_equal tags.count, existing.reload.versions.count
- assert_equal tags.sort, existing.versions.map(&:name).sort
+ assert_equal tags, existing.versions.sort_by(&:created_at).map(&:name)
end
end
end
@@ -148,6 +150,15 @@ class NfcoreScraperTest < ActionDispatch::IntegrationTest
end
end
+ test 'does not list archived or disabled repositories' do
+ project = Scrapers::Util.bot_project(title: 'test')
+ bot = Scrapers::Util.bot_account
+ scraper = Scrapers::NfcoreScraper.new('test-123', project, bot, output: StringIO.new)
+ repos = scraper.send(:list_repositories)
+ assert_equal 1, repos.length
+ assert_includes repos.map { |r| r['name'] }, 'rnaseq'
+ end
+
private
def login_as(user)
diff --git a/test/integration/schedule_test.rb b/test/integration/schedule_test.rb
index 54f930f38d..b7aa273ccb 100644
--- a/test/integration/schedule_test.rb
+++ b/test/integration/schedule_test.rb
@@ -24,6 +24,11 @@ class ScheduleTest < ActionDispatch::IntegrationTest
assert regular
assert_equal [RegularMaintenanceJob::RUN_PERIOD, { at: '1:00am' }], regular[:every]
+ # AuthLookupMaintenanceJob
+ auth = pop_task(runners, "AuthLookupMaintenanceJob.perform_later")
+ assert auth
+ assert_equal [AuthLookupMaintenanceJob::RUN_PERIOD, { at: '1:00am' }], auth[:every]
+
# LifeMonitor status
lm_status = pop_task(runners, "LifeMonitorStatusJob.perform_later")
assert lm_status
diff --git a/test/integration/workflow_ro_crate_test.rb b/test/integration/workflow_ro_crate_test.rb
index 3e660423e6..514e3e8e3a 100644
--- a/test/integration/workflow_ro_crate_test.rb
+++ b/test/integration/workflow_ro_crate_test.rb
@@ -123,12 +123,4 @@ class WorkflowRoCrateTest < ActionDispatch::IntegrationTest
File.delete(git_version.send(:ro_crate_path))
end
end
-
- test 'conformsTo' do
- crate = ROCrate::WorkflowCrate.new
-
- ids = crate['conformsTo'].map { |x| x['@id'] }
- assert_includes ids, 'https://w3id.org/ro/crate/1.1'
- assert_includes ids, 'https://w3id.org/workflowhub/workflow-ro-crate/1.0'
- end
end
diff --git a/test/test_helper.rb b/test/test_helper.rb
index 577f99a6fb..36f3a886fe 100644
--- a/test/test_helper.rb
+++ b/test/test_helper.rb
@@ -71,13 +71,13 @@ def with_alternative_rendering(key, value)
end
def with_config_value(config, value)
- Seek::Util.clear_cached if config.to_s.ends_with?('enabled')
+ Seek::Util.clear_cached
oldval = Seek::Config.send(config)
Seek::Config.send("#{config}=", value)
yield
ensure
Seek::Config.send("#{config}=", oldval)
- Seek::Util.clear_cached if config.to_s.ends_with?('enabled')
+ Seek::Util.clear_cached
end
def with_config_values(settings)
diff --git a/test/unit/asset_test.rb b/test/unit/asset_test.rb
index fc966488e5..4d4a15ad3c 100644
--- a/test/unit/asset_test.rb
+++ b/test/unit/asset_test.rb
@@ -78,12 +78,12 @@ class AssetTest < ActiveSupport::TestCase
assert df.latest_version.contains_downloadable_items?
df = FactoryBot.create :data_file, content_blob: FactoryBot.create(:content_blob, url: 'http://webpage.com', external_link: true)
- assert !df.contains_downloadable_items?
- assert !df.latest_version.contains_downloadable_items?
+ refute df.contains_downloadable_items?
+ refute df.latest_version.contains_downloadable_items?
model = FactoryBot.create :model_with_urls
- assert !model.contains_downloadable_items?
- assert !model.latest_version.contains_downloadable_items?
+ refute model.contains_downloadable_items?
+ refute model.latest_version.contains_downloadable_items?
model = FactoryBot.create :teusink_model
assert model.contains_downloadable_items?
@@ -94,10 +94,10 @@ class AssetTest < ActiveSupport::TestCase
assert model.latest_version.contains_downloadable_items?
df = DataFile.new
- assert !df.contains_downloadable_items?
+ refute df.contains_downloadable_items?
model = Model.new
- assert !model.contains_downloadable_items?
+ refute model.contains_downloadable_items?
# test for versions
model = FactoryBot.create :teusink_model
@@ -112,7 +112,14 @@ class AssetTest < ActiveSupport::TestCase
assert_equal(2, model.versions.count)
assert model.find_version(1).contains_downloadable_items?
- assert !model.find_version(2).contains_downloadable_items?
+ refute model.find_version(2).contains_downloadable_items?
+
+ workflow = FactoryBot.create(:nfcore_git_workflow)
+ assert workflow.contains_downloadable_items?
+ assert workflow.git_version.contains_downloadable_items?
+
+ workflow = Workflow.new
+ refute workflow.contains_downloadable_items?
end
test 'supports_spreadsheet_explore?' do
diff --git a/test/unit/content_blob_test.rb b/test/unit/content_blob_test.rb
index f92574fc13..111a1cafd7 100644
--- a/test/unit/content_blob_test.rb
+++ b/test/unit/content_blob_test.rb
@@ -900,61 +900,6 @@ def test_exception_when_both_data_and_io_object
refute File.exist?(txt_path)
end
- test 'fix mime type after failed csv extraction' do
- blob = FactoryBot.create(:image_content_blob, content_type:'application/excel', original_filename:'image.xls')
- assert blob.is_excel?
-
- text = blob.to_csv
-
- assert text.blank?
-
- blob.reload
-
- refute blob.is_excel?
- assert_equal 'image/png',blob.content_type
- end
-
- test 'fix mime type after failed pdf contents for search' do
- blob = FactoryBot.create(:image_content_blob, content_type: 'application/msword', original_filename: 'image.doc')
- assert blob.is_pdf_convertable?
-
- assert_empty blob.pdf_contents_for_search
-
- blob.reload
-
- refute blob.is_pdf_convertable?
- assert_equal 'image/png', blob.content_type
-
- # incorrectly described as pdf
- blob = FactoryBot.create(:image_content_blob, content_type: 'application/pdf', original_filename: 'image.pdf')
-
- assert_empty blob.pdf_contents_for_search
-
- blob.reload
-
- refute blob.is_pdf_convertable?
- assert_equal 'image/png', blob.content_type
-
- # handles when the file is actually broken, rather than failing due to the mime type
- blob = FactoryBot.create(:broken_pdf_content_blob)
- assert_empty blob.pdf_contents_for_search
- assert_equal 'application/pdf', blob.content_type
- end
-
- test 'fix mime type after spreadsheet xml fail' do
- blob = FactoryBot.create(:image_content_blob, content_type:'application/msexcel', original_filename:'image.xls')
- assert blob.is_extractable_spreadsheet?
-
- assert_raises(SysMODB::SpreadsheetExtractionException) do
- blob.to_spreadsheet_xml
- end
-
- blob.reload
-
- refute blob.is_extractable_spreadsheet?
- assert_equal 'image/png',blob.content_type
- end
-
test 'tmp_io_objects in tmp dir are deleted' do
file = Tempfile.new('testing-content-blob')
file.write('test test test')
diff --git a/test/unit/jobs/auth_lookup_maintenance_job_test.rb b/test/unit/jobs/auth_lookup_maintenance_job_test.rb
new file mode 100644
index 0000000000..102aa8c5e2
--- /dev/null
+++ b/test/unit/jobs/auth_lookup_maintenance_job_test.rb
@@ -0,0 +1,236 @@
+require 'test_helper'
+
+class AuthLookupMaintenaceJobTest < ActiveSupport::TestCase
+
+ def setup
+ #ensure a consistent initial state
+ disable_authorization_checks do
+ Seek::Util.authorized_types.each(&:destroy_all)
+ Seek::Util.authorized_types.each(&:clear_lookup_table)
+ end
+
+ User.destroy_all
+ AuthLookupUpdateQueue.destroy_all
+ end
+
+ test 'run period' do
+ assert_equal 8.hours, AuthLookupMaintenanceJob::RUN_PERIOD
+ end
+
+ test 'priority' do
+ assert_equal 3, AuthLookupMaintenanceJob.priority
+ end
+
+ test 'queue name' do
+ assert_equal QueueNames::AUTH_LOOKUP, AuthLookupMaintenanceJob.queue_name
+ end
+
+
+ test 'check authlookup consistency' do
+
+ p = FactoryBot.create(:person)
+ p2 = FactoryBot.create(:person)
+ u = FactoryBot.create(:brand_new_user)
+
+ assert_nil u.person
+
+ with_config_value(:auth_lookup_enabled, true) do
+ assert AuthLookupUpdateQueue.queue_enabled?
+
+ doc1 = FactoryBot.create(:document)
+ doc2 = FactoryBot.create(:document)
+ AuthLookupUpdateJob.perform_now
+
+ assert Document.lookup_table_consistent?(p.user)
+ assert Document.lookup_table_consistent?(p2.user)
+ assert Document.lookup_table_consistent?(nil)
+
+ assert_no_enqueued_jobs do
+ assert_no_difference('AuthLookupUpdateQueue.count') do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ # delete a record
+ Document.lookup_class.where(user_id:p.user.id,asset_id:doc1.id).last.delete
+
+ #duplicate a record
+ Document.lookup_class.where(user_id:p2.user.id, asset_id:doc2.id).last.dup.save!
+
+ refute Document.lookup_table_consistent?(p.user)
+ refute Document.lookup_table_consistent?(p2.user)
+
+ assert_enqueued_jobs(1) do
+ assert_difference('AuthLookupUpdateQueue.count',1) do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ # double check it will be fixed when the job runs
+ AuthLookupUpdateJob.perform_now
+ assert Document.lookup_table_consistent?(p.user)
+ assert Document.lookup_table_consistent?(p2.user)
+ assert Document.lookup_table_consistent?(nil)
+ end
+
+ end
+
+ test 'test for anonymous user' do
+
+ with_config_value(:auth_lookup_enabled, true) do
+ assert AuthLookupUpdateQueue.queue_enabled?
+
+ doc = FactoryBot.create(:document)
+ AuthLookupUpdateJob.perform_now
+
+ assert Document.lookup_table_consistent?(nil)
+
+ # delete a record
+ Document.lookup_class.where(user_id:0,asset_id:doc.id).last.delete
+
+ refute Document.lookup_table_consistent?(nil)
+
+ # queued after the user has been removed
+ assert_enqueued_jobs(1) do
+ assert_difference('AuthLookupUpdateQueue.count',1) do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ end
+ end
+
+ test 'skip if user or person in the queue' do
+
+ p = FactoryBot.create(:person)
+
+ with_config_value(:auth_lookup_enabled, true) do
+ assert AuthLookupUpdateQueue.queue_enabled?
+
+ doc1 = FactoryBot.create(:document)
+ AuthLookupUpdateJob.perform_now
+
+ assert Document.lookup_table_consistent?(p.user)
+
+ # delete a record
+ Document.lookup_class.where(user_id:p.user.id,asset_id:doc1.id).last.delete
+
+ refute Document.lookup_table_consistent?(p.user)
+
+ refute AuthLookupUpdateQueue.any?
+ AuthLookupUpdateQueue.create!(item: p.user)
+ assert AuthLookupUpdateQueue.any?
+
+ # nothing queued whilst user is queued
+ assert_no_enqueued_jobs do
+ assert_no_difference('AuthLookupUpdateQueue.count') do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ AuthLookupUpdateQueue.destroy_all
+ AuthLookupUpdateQueue.create!(item: p)
+ assert AuthLookupUpdateQueue.any?
+
+ # nothing queued whilst person is queued
+ assert_no_enqueued_jobs do
+ assert_no_difference('AuthLookupUpdateQueue.count') do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ AuthLookupUpdateQueue.destroy_all
+ refute AuthLookupUpdateQueue.any?
+ #add another item to make sure it's only checking for user/person
+ AuthLookupUpdateQueue.create!(item: FactoryBot.create(:sop))
+ assert AuthLookupUpdateQueue.any?
+
+ # queued after the user has been removed
+ assert_enqueued_jobs(1) do
+ assert_difference('AuthLookupUpdateQueue.count',1) do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ end
+ end
+
+ test 'skip if particular type is on the queue' do
+ p = FactoryBot.create(:person)
+
+ with_config_value(:auth_lookup_enabled, true) do
+ assert AuthLookupUpdateQueue.queue_enabled?
+
+ doc1 = FactoryBot.create(:document)
+ AuthLookupUpdateJob.perform_now
+
+ assert Document.lookup_table_consistent?(p.user)
+
+ # delete a record
+ Document.lookup_class.where(user_id:p.user.id,asset_id:doc1.id).last.delete
+
+ refute Document.lookup_table_consistent?(p.user)
+
+ refute AuthLookupUpdateQueue.any?
+ AuthLookupUpdateQueue.create!(item: doc1)
+ assert AuthLookupUpdateQueue.any?
+
+ # nothing queued whilst doc1 is queued
+ assert_no_enqueued_jobs do
+ assert_no_difference('AuthLookupUpdateQueue.count') do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ AuthLookupUpdateQueue.destroy_all
+ refute AuthLookupUpdateQueue.any?
+
+ # queued after the doc1 has been removed
+ assert_enqueued_jobs(1) do
+ assert_difference('AuthLookupUpdateQueue.count',1) do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ end
+ end
+
+ test 'checks each type' do
+ p = FactoryBot.create(:person)
+
+ with_config_value(:auth_lookup_enabled, true) do
+ assert AuthLookupUpdateQueue.queue_enabled?
+
+ doc = FactoryBot.create(:document)
+ sample = FactoryBot.create(:sample)
+ sop = FactoryBot.create(:sop)
+ with_config_value(:auth_lookup_update_batch_size, 20) do
+ AuthLookupUpdateJob.perform_now
+ end
+
+ assert Document.lookup_table_consistent?(p.user)
+ assert Sample.lookup_table_consistent?(p.user)
+ assert Sop.lookup_table_consistent?(p.user)
+
+ # delete a record
+ Document.lookup_class.where(user_id:p.user.id,asset_id:doc.id).last.delete
+ Sample.lookup_class.where(user_id:p.user.id,asset_id:sample.id).last.delete
+ Sop.lookup_class.where(user_id:p.user.id,asset_id:sop.id).last.delete
+
+ refute Document.lookup_table_consistent?(p.user)
+ refute Sample.lookup_table_consistent?(p.user)
+ refute Sop.lookup_table_consistent?(p.user)
+
+ assert_enqueued_jobs(3) do
+ assert_difference('AuthLookupUpdateQueue.count',3) do
+ AuthLookupMaintenanceJob.perform_now
+ end
+ end
+
+ assert AuthLookupUpdateQueue.where(item: doc).any?
+ assert AuthLookupUpdateQueue.where(item: sample).any?
+ assert AuthLookupUpdateQueue.where(item: sop).any?
+ end
+ end
+
+end
\ No newline at end of file
diff --git a/test/unit/jobs/populate_templates_job_test.rb b/test/unit/jobs/populate_templates_job_test.rb
index 026d19c587..0558063667 100644
--- a/test/unit/jobs/populate_templates_job_test.rb
+++ b/test/unit/jobs/populate_templates_job_test.rb
@@ -1,11 +1,66 @@
require 'test_helper'
class PopulateTemplatesJobTest < ActiveSupport::TestCase
+ def setup
+ # Create the SampleAttributeTypes
+ # The title MUST be set manually!
+ FactoryBot.create(:string_sample_attribute_type, title: 'String attribute type 1')
+ FactoryBot.create(:sample_multi_sample_attribute_type, title: 'Sample multi attribute type 1')
+
+ # Create the ISA Tags
+ %i[source_isa_tag sample_isa_tag protocol_isa_tag source_characteristic_isa_tag sample_characteristic_isa_tag
+ other_material_isa_tag other_material_characteristic_isa_tag data_file_isa_tag parameter_value_isa_tag
+ data_file_comment_isa_tag default_isa_tag].map do |tag|
+ FactoryBot.create(tag)
+ end
+
+ # Set isa_json_compliance_enabled to true
+ Seek::Config.isa_json_compliance_enabled = true
+ end
+
+ def teardown
+ # Set isa_json_compliance_enabled back to false
+ Seek::Config.isa_json_compliance_enabled = false
+ end
+
test 'perform' do
- with_config_value(:isa_json_compliance_enabled, true) do
- assert_nothing_raised do
+ # Copy the JSON file to the source_types directory
+ src = Rails.root.join('test', 'fixtures', 'files', 'upload_json_sample_type_template', 'test_templates.json')
+ dest = Seek::Config.append_filestore_path('source_types')
+ FileUtils.cp(src, dest)
+
+ assert_nothing_raised do
+ assert_difference('Template.count', 4) do
PopulateTemplatesJob.perform_now
end
end
end
+
+ test 'perform with json containing invalid sample attribute type' do
+ # Copy the JSON file to the source_types directory
+ src = Rails.root.join('test', 'fixtures', 'files', 'upload_json_sample_type_template', 'invalid_attribute_type_templates.json')
+ dest = Seek::Config.append_filestore_path('source_types')
+ FileUtils.cp(src, dest)
+
+ assert_no_difference('Template.count') do
+ assert_raises(RuntimeError,
+'The property \'#/data/0/data/1/dataType\' value \"Invalid String attribute type 1\" did not match one of the following values: String attribute type 1, Sample multi attribute type 1 in schema file:///home/kepel/projects/seek/lib/seek/isa_templates/template_attributes_schema_test.json# Could not find a Sample Attribute Type named \'Invalid String attribute type 1\'