+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: AGPL-3.0
+
module ApplicationHelper
def current_user
controller.current_user
Rails.configuration.arvados_v1_base.gsub /https?:\/\/|\/arvados\/v1/,''
end
+ def current_uuid_prefix
+ current_api_host[0..4]
+ end
+
def render_markup(markup)
- raw RedCloth.new(markup.to_s).to_html(:refs_arvados, :textile) if markup
+ allowed_tags = Rails::Html::Sanitizer.white_list_sanitizer.allowed_tags + %w(table tbody th tr td col colgroup caption thead tfoot)
+ sanitize(raw(RedCloth.new(markup.to_s).to_html(:refs_arvados, :textile)), tags: allowed_tags) if markup
end
def human_readable_bytes_html(n)
end
return h(n)
- #raw = n.to_s
- #cooked = ''
- #while raw.length > 3
- # cooked = ',' + raw[-3..-1] + cooked
- # raw = raw[0..-4]
- #end
- #cooked = raw + cooked
end
def resource_class_for_uuid(attrvalue, opts={})
ArvadosBase::resource_class_for_uuid(attrvalue, opts)
end
+ # When using {remote:true}, or using {method:...} to use an HTTP
+ # method other than GET, move the target URI from href to
+ # data-remote-href. Otherwise, browsers offer features like "open in
+ # new window" and "copy link address" which bypass Rails' click
+ # handler and therefore end up at incorrect/nonexistent routes (by
+ # ignoring data-method) and expect to receive pages rather than
+ # javascript responses.
+ #
+ # See assets/javascripts/link_to_remote.js for supporting code.
+ def link_to *args, &block
+ if (args.last and args.last.is_a? Hash and
+ (args.last[:remote] or
+ (args.last[:method] and
+ args.last[:method].to_s.upcase != 'GET')))
+ if Rails.env.test?
+ # Capybara/phantomjs can't click_link without an href, even if
+ # the click handler means it never gets used.
+ raw super.gsub(' href="', ' href="#" data-remote-href="')
+ else
+ # Regular browsers work as desired: users can click A elements
+ # without hrefs, and click handlers fire; but there's no "copy
+ # link address" option in the right-click menu.
+ raw super.gsub(' href="', ' data-remote-href="')
+ end
+ else
+ super
+ end
+ end
+
##
# Returns HTML that links to the Arvados object specified in +attrvalue+
# Provides various output control and styling options.
else
begin
if resource_class.name == 'Collection'
- link_name = collections_for_object(link_uuid).andand.first.andand.friendly_link_name
+ if CollectionsHelper.match(link_uuid)
+ link_name = collection_for_pdh(link_uuid).andand.first.andand.portable_data_hash
+ else
+ link_name = collections_for_object(link_uuid).andand.first.andand.friendly_link_name
+ end
else
link_name = object_for_dataclass(resource_class, link_uuid).andand.friendly_link_name
end
end
end
style_opts[:class] = (style_opts[:class] || '') + ' nowrap'
- if opts[:no_link]
+ if opts[:no_link] or (resource_class == User && !current_user)
raw(link_name)
else
- (link_to raw(link_name), { controller: resource_class.to_s.tableize, action: 'show', id: ((opts[:name_link].andand.uuid) || link_uuid) }, style_opts) + raw(tags)
+ controller_class = resource_class.to_s.tableize
+ if controller_class.eql?('groups') and object.andand.group_class.eql?('project')
+ controller_class = 'projects'
+ end
+ (link_to raw(link_name), { controller: controller_class, action: 'show', id: ((opts[:name_link].andand.uuid) || link_uuid) }, style_opts) + raw(tags)
end
else
# just return attrvalue if it is not recognizable as an Arvados object or uuid.
end
end
- def render_editable_attribute(object, attr, attrvalue=nil, htmloptions={})
+ def link_to_arvados_object_if_readable(attrvalue, link_text_if_not_readable, opts={})
+ resource_class = resource_class_for_uuid(attrvalue.split('/')[0]) if attrvalue.is_a?(String)
+ if !resource_class
+ return link_to_if_arvados_object attrvalue, opts
+ end
+
+ readable = object_readable attrvalue, resource_class
+ if readable
+ link_to_if_arvados_object attrvalue, opts
+ elsif opts[:required] and current_user # no need to show this for anonymous user
+ raw('<div><input type="text" style="border:none;width:100%;background:#ffdddd" disabled=true class="required unreadable-input" value="') + link_text_if_not_readable + raw('" ></input></div>')
+ else
+ link_text_if_not_readable
+ end
+ end
+
+ # This method takes advantage of preloaded collections and objects.
+ # Hence you can improve performance by first preloading objects
+ # related to the page context before using this method.
+ def object_readable attrvalue, resource_class=nil
+ # if it is a collection filename, check readable for the locator
+ attrvalue = attrvalue.split('/')[0] if attrvalue
+
+ resource_class = resource_class_for_uuid(attrvalue) if resource_class.nil?
+ return if resource_class.nil?
+
+ return_value = nil
+ if resource_class.to_s == 'Collection'
+ if CollectionsHelper.match(attrvalue)
+ found = collection_for_pdh(attrvalue)
+ return_value = found.first if found.any?
+ else
+ found = collections_for_object(attrvalue)
+ return_value = found.first if found.any?
+ end
+ else
+ return_value = object_for_dataclass(resource_class, attrvalue)
+ end
+ return_value
+ end
+
+ # Render an editable attribute with the attrvalue of the attr.
+ # The htmloptions are added to the editable element's list of attributes.
+ # The nonhtml_options are only used to customize the display of the element.
+ def render_editable_attribute(object, attr, attrvalue=nil, htmloptions={}, nonhtml_options={})
attrvalue = object.send(attr) if attrvalue.nil?
if not object.attribute_editable?(attr)
if attrvalue && attrvalue.length > 0
end
input_type = 'text'
- case object.class.attribute_info[attr.to_sym].andand[:type]
- when 'text'
+ attrtype = object.class.attribute_info[attr.to_sym].andand[:type]
+ if attrtype == 'text' or attr == 'description'
input_type = 'textarea'
- when 'datetime'
+ elsif attrtype == 'datetime'
input_type = 'date'
else
input_type = 'text'
"data-placement" => "bottom",
"data-type" => input_type,
"data-title" => "Edit #{attr.to_s.gsub '_', ' '}",
- "data-name" => attr,
+ "data-name" => htmloptions['selection_name'] || attr,
"data-object-uuid" => object.uuid,
"data-toggle" => "manual",
- "data-value" => attrvalue,
+ "data-value" => htmloptions['data-value'] || attrvalue,
"id" => span_id,
:class => "editable #{is_textile?( object, attr ) ? 'editable-textile' : ''}"
}.merge(htmloptions).merge(ajax_options)
- edit_button = raw('<a href="#" class="btn btn-xs btn-default btn-nodecorate" data-toggle="x-editable tooltip" data-toggle-selector="#' + span_id + '" data-placement="top" title="' + (htmloptions[:tiptitle] || 'edit') + '"><i class="fa fa-fw fa-pencil"></i></a>')
- if htmloptions[:btnplacement] == :left
+
+ edit_tiptitle = 'edit'
+ edit_tiptitle = 'Warning: do not use hyphens in the repository name as they will be stripped' if (object.class.to_s == 'Repository' and attr == 'name')
+
+ edit_button = raw('<a href="#" class="btn btn-xs btn-' + (nonhtml_options[:btnclass] || 'default') + ' btn-nodecorate" data-toggle="x-editable tooltip" data-toggle-selector="#' + span_id + '" data-placement="top" title="' + (nonhtml_options[:tiptitle] || edit_tiptitle) + '"><i class="fa fa-fw fa-pencil"></i>' + (nonhtml_options[:btntext] || '') + '</a>')
+
+ if nonhtml_options[:btnplacement] == :left
edit_button + ' ' + span_tag
+ elsif nonhtml_options[:btnplacement] == :top
+ edit_button + raw('<br/>') + span_tag
else
span_tag + ' ' + edit_button
end
end
if not object.andand.attribute_editable?(attr)
- return link_to_if_arvados_object attrvalue
+ return link_to_arvados_object_if_readable(attrvalue, attrvalue, {friendly_name: true, required: required})
end
if dataclass
dn += '[value]'
end
- if dataclass == Collection
+ if (dataclass == Collection) or (dataclass == File)
selection_param = object.class.to_s.underscore + dn
display_value = attrvalue
if value_info.is_a?(Hash)
display_value = link.name
elsif value_info[:link_name]
display_value = value_info[:link_name]
+ elsif value_info[:selection_name]
+ display_value = value_info[:selection_name]
end
end
if (attr == :components) and (subattr.size > 2)
- chooser_title = "Choose a dataset for #{object.component_input_title(subattr[0], subattr[2])}:"
+ chooser_title = "Choose a #{dataclass == Collection ? 'dataset' : 'file'} for #{object.component_input_title(subattr[0], subattr[2])}:"
else
- chooser_title = "Choose a dataset:"
+ chooser_title = "Choose a #{dataclass == Collection ? 'dataset' : 'file'}:"
end
modal_path = choose_collections_path \
({ title: chooser_title,
preconfigured_search_str: (preconfigured_search_str || ""),
action_data: {
merge: true,
+ use_preview_selection: dataclass == File ? true : nil,
selection_param: selection_param,
success: 'page-refresh'
}.to_json,
})
+
return content_tag('div', :class => 'input-group') do
html = text_field_tag(dn, display_value,
:class =>
- "form-control #{'required' if required}")
+ "form-control #{'required' if required} #{'unreadable-input' if attrvalue.present? and !object_readable(attrvalue, Collection)}")
html + content_tag('span', :class => 'input-group-btn') do
link_to('Choose',
modal_path,
end
end
- if dataclass.andand.is_a?(Class)
- datatype = 'select'
- elsif dataclass == 'number'
- datatype = 'number'
- elsif attrvalue.is_a? Array
- # TODO: find a way to edit arrays with x-editable
- return attrvalue
- elsif attrvalue.is_a? Fixnum or attrvalue.is_a? Float
- datatype = 'number'
- elsif attrvalue.is_a? String
+ if attrvalue.is_a? String
datatype = 'text'
+ elsif attrvalue.is_a?(Array) or dataclass.andand.is_a?(Class)
+ # TODO: find a way to edit with x-editable
+ return attrvalue
end
- # preload data
- preload_uuids = []
- items = []
- selectables = []
-
- attrtext = attrvalue
- if dataclass.is_a? Class and dataclass < ArvadosBase
- objects = get_n_objects_of_class dataclass, 10
- objects.each do |item|
- items << item
- preload_uuids << item.uuid
- end
- if attrvalue and !attrvalue.empty?
- preload_uuids << attrvalue
- end
- preload_links_for_objects preload_uuids
-
- if attrvalue and !attrvalue.empty?
- links_for_object(attrvalue).each do |link|
- if link.link_class.in? ["tag", "identifier"]
- attrtext += " [#{link.name}]"
- end
- end
- selectables.append({name: attrtext, uuid: attrvalue, type: dataclass.to_s})
- end
- itemuuids = []
- items.each do |item|
- itemuuids << item.uuid
- selectables.append({name: item.uuid, uuid: item.uuid, type: dataclass.to_s})
- end
-
- itemuuids.each do |itemuuid|
- links_for_object(itemuuid).each do |link|
- if link.link_class.in? ["tag", "identifier"]
- selectables.each do |selectable|
- if selectable['uuid'] == link.head_uuid
- selectable['name'] += ' [' + link.name + ']'
- end
- end
- end
- end
- end
- end
-
- lt = link_to attrtext, '#', {
+ # When datatype is a String or Fixnum, link_to the attrvalue
+ lt = link_to attrvalue, '#', {
"data-emptytext" => "none",
"data-placement" => "bottom",
"data-type" => datatype,
:id => id
}.merge(htmloptions)
- lt += raw("\n<script>")
+ lt
+ end
- if selectables.any?
- lt += raw("add_form_selection_sources(#{selectables.to_json});\n")
+ def get_cwl_main(workflow)
+ if workflow[:"$graph"].nil?
+ return workflow
+ else
+ workflow[:"$graph"].each do |tool|
+ if tool[:id] == "#main"
+ return tool
+ end
+ end
end
+ end
- lt += raw("$('[data-name=\"#{dn}\"]').editable({source: function() { return select_form_sources('#{dataclass}'); } });\n")
+ def get_cwl_inputs(workflow)
+ get_cwl_main(workflow)[:inputs]
+ end
- lt += raw("</script>")
- lt
+ def cwl_shortname(id)
+ if id[0] == "#"
+ id = id[1..-1]
+ end
+ return id.split("/")[-1]
+ end
+
+ def cwl_input_info(input_schema)
+ required = !(input_schema[:type].include? "null")
+ if input_schema[:type].is_a? Array
+ primary_type = input_schema[:type].select { |n| n != "null" }[0]
+ elsif input_schema[:type].is_a? String
+ primary_type = input_schema[:type]
+ elsif input_schema[:type].is_a? Hash
+ primary_type = input_schema[:type]
+ end
+ param_id = cwl_shortname(input_schema[:id])
+ return required, primary_type, param_id
+ end
+
+ def cwl_input_value(object, input_schema, set_attr_path)
+ dn = ""
+ attrvalue = object
+ set_attr_path.each do |a|
+ dn += "[#{a}]"
+ attrvalue = attrvalue[a.to_sym]
+ end
+ return dn, attrvalue
+ end
+
+ def cwl_inputs_required(object, inputs_schema, set_attr_path)
+ r = 0
+ inputs_schema.each do |input|
+ required, primary_type, param_id = cwl_input_info(input)
+ dn, attrvalue = cwl_input_value(object, input, set_attr_path + [param_id])
+ r += 1 if required and attrvalue.nil?
+ end
+ r
+ end
+
+ def render_cwl_input(object, input_schema, set_attr_path, htmloptions={})
+ required, primary_type, param_id = cwl_input_info(input_schema)
+
+ dn, attrvalue = cwl_input_value(object, input_schema, set_attr_path + [param_id])
+ attrvalue = if attrvalue.nil? then "" else attrvalue end
+
+ id = "#{object.uuid}-#{param_id}"
+
+ opt_empty_selection = if required then [] else [{value: "", text: ""}] end
+
+ if ["Directory", "File"].include? primary_type
+ chooser_title = "Choose a #{primary_type == 'Directory' ? 'dataset' : 'file'}:"
+ selection_param = object.class.to_s.underscore + dn
+ if attrvalue.is_a? Hash
+ display_value = attrvalue[:"arv:collection"] || attrvalue[:location]
+ re = CollectionsHelper.match_uuid_with_optional_filepath(display_value)
+ if re
+ if re[4]
+ display_value = "#{Collection.find(re[1]).name} / #{re[4][1..-1]}"
+ else
+ display_value = Collection.find(re[1]).name
+ end
+ end
+ end
+ modal_path = choose_collections_path \
+ ({ title: chooser_title,
+ filters: [['owner_uuid', '=', object.owner_uuid]].to_json,
+ action_name: 'OK',
+ action_href: container_request_path(id: object.uuid),
+ action_method: 'patch',
+ preconfigured_search_str: "",
+ action_data: {
+ merge: true,
+ use_preview_selection: primary_type == 'File' ? true : nil,
+ selection_param: selection_param,
+ success: 'page-refresh'
+ }.to_json,
+ })
+
+ return content_tag('div', :class => 'input-group') do
+ html = text_field_tag(dn, display_value,
+ :class =>
+ "form-control #{'required' if required}")
+ html + content_tag('span', :class => 'input-group-btn') do
+ link_to('Choose',
+ modal_path,
+ { :class => "btn btn-primary",
+ :remote => true,
+ :method => 'get',
+ })
+ end
+ end
+ elsif "boolean" == primary_type
+ return link_to attrvalue.to_s, '#', {
+ "data-emptytext" => "none",
+ "data-placement" => "bottom",
+ "data-type" => "select",
+ "data-source" => (opt_empty_selection + [{value: "true", text: "true"}, {value: "false", text: "false"}]).to_json,
+ "data-url" => url_for(action: "update", id: object.uuid, controller: object.class.to_s.pluralize.underscore, merge: true),
+ "data-title" => "Set value for #{cwl_shortname(input_schema[:id])}",
+ "data-name" => dn,
+ "data-pk" => "{id: \"#{object.uuid}\", key: \"#{object.class.to_s.underscore}\"}",
+ "data-value" => attrvalue.to_s,
+ # "clear" button interferes with form-control's up/down arrows
+ "data-clear" => false,
+ :class => "editable #{'required' if required} form-control",
+ :id => id
+ }.merge(htmloptions)
+ elsif primary_type.is_a? Hash and primary_type[:type] == "enum"
+ return link_to attrvalue, '#', {
+ "data-emptytext" => "none",
+ "data-placement" => "bottom",
+ "data-type" => "select",
+ "data-source" => (opt_empty_selection + primary_type[:symbols].map {|i| {:value => i, :text => i} }).to_json,
+ "data-url" => url_for(action: "update", id: object.uuid, controller: object.class.to_s.pluralize.underscore, merge: true),
+ "data-title" => "Set value for #{cwl_shortname(input_schema[:id])}",
+ "data-name" => dn,
+ "data-pk" => "{id: \"#{object.uuid}\", key: \"#{object.class.to_s.underscore}\"}",
+ "data-value" => attrvalue,
+ # "clear" button interferes with form-control's up/down arrows
+ "data-clear" => false,
+ :class => "editable #{'required' if required} form-control",
+ :id => id
+ }.merge(htmloptions)
+ elsif primary_type.is_a? String
+ if ["int", "long"].include? primary_type
+ datatype = "number"
+ else
+ datatype = "text"
+ end
+
+ return link_to attrvalue, '#', {
+ "data-emptytext" => "none",
+ "data-placement" => "bottom",
+ "data-type" => datatype,
+ "data-url" => url_for(action: "update", id: object.uuid, controller: object.class.to_s.pluralize.underscore, merge: true),
+ "data-title" => "Set value for #{cwl_shortname(input_schema[:id])}",
+ "data-name" => dn,
+ "data-pk" => "{id: \"#{object.uuid}\", key: \"#{object.class.to_s.underscore}\"}",
+ "data-value" => attrvalue,
+ # "clear" button interferes with form-control's up/down arrows
+ "data-clear" => false,
+ :class => "editable #{'required' if required} form-control",
+ :id => id
+ }.merge(htmloptions)
+ else
+ return "Unable to render editing control for parameter type #{primary_type}"
+ end
end
def render_arvados_object_list_start(list, button_text, button_href,
RESOURCE_CLASS_ICONS = {
"Collection" => "fa-archive",
+ "ContainerRequest" => "fa-gears",
"Group" => "fa-users",
"Human" => "fa-male", # FIXME: Use a more inclusive icon.
"Job" => "fa-gears",
"Trait" => "fa-clipboard",
"User" => "fa-user",
"VirtualMachine" => "fa-terminal",
+ "Workflow" => "fa-gears",
}
DEFAULT_ICON_CLASS = "fa-cube"
end
end
- def chooser_preview_url_for object
+ def chooser_preview_url_for object, use_preview_selection=false
case object.class.to_s
when 'Collection'
- polymorphic_path(object, tab_pane: 'chooser_preview')
+ polymorphic_path(object, tab_pane: 'chooser_preview', use_preview_selection: use_preview_selection)
else
nil
end
raw("<span class='utc-date' data-utc-date='#{date}' data-utc-date-opts='noseconds'>#{date}</span>")
end
+ def render_time duration, use_words, round_to_min=true
+ render_runtime duration, use_words, round_to_min
+ end
+
+ # Keep locators are expected to be of the form \"...<pdh/file_path>\"
+ JSON_KEEP_LOCATOR_REGEXP = /([0-9a-f]{32}\+\d+[^'"]*?)(?=['"]|\z|$)/
+ def keep_locator_in_json str
+ # Return a list of all matches
+ str.scan(JSON_KEEP_LOCATOR_REGEXP).flatten
+ end
+
private
def is_textile?( object, attr )
is_textile = object.textile_attributes.andand.include?(attr)