+require "arvados/keep"
+
class CollectionsController < ApplicationController
+ include ActionController::Live
+
skip_around_filter(:require_thread_api_token,
only: [:show_file, :show_file_links])
skip_before_filter(:find_object_by_uuid,
RELATION_LIMIT = 5
def show_pane_list
- %w(Files Provenance_graph Used_by Advanced)
+ panes = %w(Files Upload Provenance_graph Used_by Advanced)
+ panes = panes - %w(Upload) unless (@object.editable? rescue false)
+ panes
end
def set_persistent
end
end
- def choose
- # Find collections using default find_objects logic, then search for name
- # links, and preload any other links connected to the collections that are
- # found.
- # Name links will be obsolete when issue #3036 is merged,
- # at which point this entire custom #choose function can probably be
- # eliminated.
-
- params[:limit] ||= 40
-
- find_objects_for_index
- @collections = @objects
-
- @filters += [['link_class','=','name'],
- ['head_uuid','is_a','arvados#collection']]
-
- @objects = Link
- find_objects_for_index
-
- @name_links = @objects
-
- @objects = Collection.
- filter([['uuid','in',@name_links.collect(&:head_uuid)]])
-
- preload_links_for_objects (@collections.to_a + @objects.to_a)
- super
- end
-
def index
# API server index doesn't return manifest_text by default, but our
# callers want it unless otherwise specified.
base_search = Collection.select(@select)
if params[:search].andand.length.andand > 0
tags = Link.where(any: ['contains', params[:search]])
- @collections = (base_search.where(uuid: tags.collect(&:head_uuid)) |
+ @objects = (base_search.where(uuid: tags.collect(&:head_uuid)) |
base_search.where(any: ['contains', params[:search]])).
uniq { |c| c.uuid }
else
offset = 0
end
- @collections = base_search.limit(limit).offset(offset)
+ @objects = base_search.limit(limit).offset(offset)
end
- @links = Link.limit(1000).
- where(head_uuid: @collections.collect(&:uuid))
+ @links = Link.where(head_uuid: @objects.collect(&:uuid))
@collection_info = {}
- @collections.each do |c|
+ @objects.each do |c|
@collection_info[c.uuid] = {
tag_links: [],
wanted: false,
usable_token = find_usable_token(tokens) do
coll = Collection.find(params[:uuid])
end
+
+ file_name = params[:file].andand.sub(/^(\.\/|\/|)/, './')
if usable_token.nil?
return # Response already rendered.
- elsif params[:file].nil? or not coll.manifest.has_file?(params[:file])
+ elsif file_name.nil? or not coll.manifest.has_file?(file_name)
return render_not_found
end
+
opts = params.merge(arvados_api_token: usable_token)
+
+ # Handle Range requests. Currently we support only 'bytes=0-....'
+ if request.headers.include? 'HTTP_RANGE'
+ if m = /^bytes=0-(\d+)/.match(request.headers['HTTP_RANGE'])
+ opts[:maxbytes] = m[1]
+ size = params[:size] || '*'
+ self.response.status = 206
+ self.response.headers['Content-Range'] = "bytes 0-#{m[1]}/#{size}"
+ end
+ end
+
ext = File.extname(params[:file])
self.response.headers['Content-Type'] =
Rack::Mime::MIME_TYPES[ext] || 'application/octet-stream'
- self.response.headers['Content-Length'] = params[:size] if params[:size]
+ if params[:size]
+ size = params[:size].to_i
+ if opts[:maxbytes]
+ size = [size, opts[:maxbytes].to_i].min
+ end
+ self.response.headers['Content-Length'] = size.to_s
+ end
self.response.headers['Content-Disposition'] = params[:disposition] if params[:disposition]
- self.response_body = file_enumerator opts
+ begin
+ file_enumerator(opts).each do |bytes|
+ response.stream.write bytes
+ end
+ ensure
+ response.stream.close
+ end
end
def sharing_scopes
end
end
+ def find_object_by_uuid
+ if not Keep::Locator.parse params[:id]
+ super
+ end
+ end
+
def show
return super if !@object
if current_user
- jobs_with = lambda do |conds|
- Job.limit(RELATION_LIMIT).where(conds)
- .results.sort_by { |j| j.finished_at || j.created_at }
- end
- @output_of = jobs_with.call(output: @object.portable_data_hash)
- @log_of = jobs_with.call(log: @object.portable_data_hash)
- @project_links = Link.limit(RELATION_LIMIT).order("modified_at DESC")
- .where(head_uuid: @object.uuid, link_class: 'name').results
- project_hash = Group.where(uuid: @project_links.map(&:tail_uuid)).to_hash
- @projects = project_hash.values
-
- if @object.uuid.match /[0-9a-f]{32}/
+ if Keep::Locator.parse params["uuid"]
@same_pdh = Collection.filter([["portable_data_hash", "=", @object.portable_data_hash]])
- owners = @same_pdh.map {|s| s.owner_uuid}.to_a
+ if @same_pdh.results.size == 1
+ redirect_to collection_path(@same_pdh[0]["uuid"])
+ return
+ end
+ owners = @same_pdh.map(&:owner_uuid).to_a.uniq
preload_objects_for_dataclass Group, owners
preload_objects_for_dataclass User, owners
+ render 'hash_matches'
+ return
+ else
+ jobs_with = lambda do |conds|
+ Job.limit(RELATION_LIMIT).where(conds)
+ .results.sort_by { |j| j.finished_at || j.created_at }
+ end
+ @output_of = jobs_with.call(output: @object.portable_data_hash)
+ @log_of = jobs_with.call(log: @object.portable_data_hash)
+ @project_links = Link.limit(RELATION_LIMIT).order("modified_at DESC")
+ .where(head_uuid: @object.uuid, link_class: 'name').results
+ project_hash = Group.where(uuid: @project_links.map(&:tail_uuid)).to_hash
+ @projects = project_hash.values
+
+ @permissions = Link.limit(RELATION_LIMIT).order("modified_at DESC")
+ .where(head_uuid: @object.uuid, link_class: 'permission',
+ name: 'can_read').results
+ @logs = Log.limit(RELATION_LIMIT).order("created_at DESC")
+ .where(object_uuid: @object.uuid).results
+ @is_persistent = Link.limit(1)
+ .where(head_uuid: @object.uuid, tail_uuid: current_user.uuid,
+ link_class: 'resources', name: 'wants')
+ .results.any?
+ @search_sharing = search_scopes
+
+ if params["tab_pane"] == "Provenance_graph"
+ @prov_svg = ProvenanceHelper::create_provenance_graph(@object.provenance, "provenance_svg",
+ {:request => request,
+ :direction => :bottom_up,
+ :combine_jobs => :script_only}) rescue nil
+ end
+ if params["tab_pane"] == "Used_by"
+ @used_by_svg = ProvenanceHelper::create_provenance_graph(@object.used_by, "used_by_svg",
+ {:request => request,
+ :direction => :top_down,
+ :combine_jobs => :script_only,
+ :pdata_only => true}) rescue nil
+ end
end
-
- @permissions = Link.limit(RELATION_LIMIT).order("modified_at DESC")
- .where(head_uuid: @object.uuid, link_class: 'permission',
- name: 'can_read').results
- @logs = Log.limit(RELATION_LIMIT).order("created_at DESC")
- .where(object_uuid: @object.uuid).results
- @is_persistent = Link.limit(1)
- .where(head_uuid: @object.uuid, tail_uuid: current_user.uuid,
- link_class: 'resources', name: 'wants')
- .results.any?
- @search_sharing = search_scopes
- end
-
- if params["tab_pane"] == "Provenance_graph"
- @prov_svg = ProvenanceHelper::create_provenance_graph(@object.provenance, "provenance_svg",
- {:request => request,
- :direction => :bottom_up,
- :combine_jobs => :script_only}) rescue nil
- end
- if params["tab_pane"] == "Used_by"
- @used_by_svg = ProvenanceHelper::create_provenance_graph(@object.used_by, "used_by_svg",
- {:request => request,
- :direction => :top_down,
- :combine_jobs => :script_only,
- :pdata_only => true}) rescue nil
end
super
end
def sharing_popup
@search_sharing = search_scopes
- respond_to do |format|
- format.html
- format.js
- end
+ render("sharing_popup.js", content_type: "text/javascript")
end
helper_method :download_link
end
def share
- a = ApiClientAuthorization.create(scopes: sharing_scopes)
- @search_sharing = search_scopes
- render 'sharing_popup'
+ ApiClientAuthorization.create(scopes: sharing_scopes)
+ sharing_popup
end
def unshare
- @search_sharing = search_scopes
- @search_sharing.each do |s|
+ search_scopes.each do |s|
s.destroy
end
- @search_sharing = search_scopes
- render 'sharing_popup'
+ sharing_popup
end
protected
most_specific_error = [401]
token_list.each do |api_token|
begin
- using_specific_api_token(api_token) do
+ # We can't load the corresponding user, because the token may not
+ # be scoped for that.
+ using_specific_api_token(api_token, load_user: false) do
yield
return api_token
end
env['ARVADOS_API_TOKEN'] = @opts[:arvados_api_token]
env['ARVADOS_API_HOST_INSECURE'] = "true" if Rails.configuration.arvados_insecure_https
- IO.popen([env, 'arv-get', "#{@opts[:uuid]}/#{@opts[:file]}"],
- 'rb') do |io|
- while buf = io.read(2**16)
- yield buf
+ bytesleft = @opts[:maxbytes].andand.to_i || 2**16
+ io = IO.popen([env, 'arv-get', "#{@opts[:uuid]}/#{@opts[:file]}"], 'rb')
+ while bytesleft > 0 && (buf = io.read([bytesleft, 2**16].min)) != nil
+ # shrink the bytesleft count, if we were given a maximum byte
+ # count to read
+ if @opts.include? :maxbytes
+ bytesleft = bytesleft - buf.length
end
+ yield buf
end
+ io.close
+ # "If ios is opened by IO.popen, close sets $?."
+ # http://www.ruby-doc.org/core-2.1.3/IO.html#method-i-close
Rails.logger.warn("#{@opts[:uuid]}/#{@opts[:file]}: #{$?}") if $? != 0
end
end
projects / arvados.git / blobdiff