class CollectionsController < ApplicationController
- skip_before_filter :find_object_by_uuid, :only => [:graph]
+ skip_before_filter :find_object_by_uuid, :only => [:provenance]
skip_before_filter :check_user_agreements, :only => [:show_file]
- def graph
- index
+ def show_pane_list
+ %w(Files Attributes Metadata Provenance_graph Used_by JSON API)
+ end
+
+ def set_persistent
+ case params[:value]
+ when 'persistent', 'cache'
+ persist_links = Link.filter([['owner_uuid', '=', current_user.uuid],
+ ['link_class', '=', 'resources'],
+ ['name', '=', 'wants'],
+ ['tail_uuid', '=', current_user.uuid],
+ ['head_uuid', '=', @object.uuid]])
+ logger.debug persist_links.inspect
+ else
+ return unprocessable "Invalid value #{value.inspect}"
+ end
+ if params[:value] == 'persistent'
+ if not persist_links.any?
+ Link.create(link_class: 'resources',
+ name: 'wants',
+ tail_uuid: current_user.uuid,
+ head_uuid: @object.uuid)
+ end
+ else
+ persist_links.each do |link|
+ link.destroy || raise
+ end
+ end
+
+ respond_to do |f|
+ f.json { render json: @object }
+ end
end
def index
Collection.where(any: ['contains', params[:search]])).
uniq { |c| c.uuid }
else
- @collections = Collection.limit(100)
+ if params[:limit]
+ limit = params[:limit].to_i
+ else
+ limit = 100
+ end
+
+ if params[:offset]
+ offset = params[:offset].to_i
+ else
+ offset = 0
+ end
+
+ @collections = Collection.limit(limit).offset(offset)
end
@links = Link.limit(1000).
where(head_uuid: @collections.collect(&:uuid))
@collection_info = {}
@collections.each do |c|
@collection_info[c.uuid] = {
- tags: [],
+ tag_links: [],
wanted: false,
wanted_by_me: false,
provenance: [],
info = @collection_info[link.head_uuid]
case link.link_class
when 'tag'
- info[:tags] << link.name
+ info[:tag_links] << link
when 'resources'
info[:wanted] = true
info[:wanted_by_me] ||= link.tail_uuid == current_user.uuid
self.response_body = FileStreamer.new opts
end
- def generate_edges(gr, uuid, edge_added = false)
- m = /([a-f0-9]{32}(\+[0-9]+)?)(\+.*)?/.match(uuid)
- if m
- # uuid is a collection
- uuid = m[1]
- gr += "\"#{uuid}\" [href=\"#{collection_path uuid}\"];"
-
- Job.where(output: uuid).each do |job|
- gr += "\"#{job.uuid}\" [href=\"#{job_path job.uuid}\"];"
- gr += "\"#{uuid}\" -> \"#{job.uuid}\" [label=\" output\"];"
- gr = generate_edges(gr, job.uuid)
- end
-
- Job.where(log: uuid).each do |job|
- gr += "\"#{job.uuid}\" [href=\"#{job_path job.uuid}\"];"
- gr += "\"#{uuid}\" -> \"#{job.uuid}\" [label=\" log\"];"
- gr = generate_edges(gr, job.uuid)
- end
-
- else
- # uuid is something else
- rsc = ArvadosBase::resource_class_for_uuid uuid
- gr += "\"#{uuid}\" [href=\"#{rsc}/#{uuid}\"];"
-
- if rsc.to_s == "Job"
- Job.where(uuid: uuid).each do |job|
- job.script_parameters.each do |k, v|
- gr += "\"#{job.uuid}\" [href=\"#{job_path job.uuid}\"];"
- gr += "\"#{job.uuid}\" -> \"#{v}\" [label=\" #{k}\"];"
- gr = generate_edges(gr, v)
- end
- end
- end
-
- gr
- end
-
- Link.where(head_uuid: uuid, link_class: "provenance", name: "provided").each do |link|
- rsc = ArvadosBase::resource_class_for_uuid link.tail_uuid
- puts "rsc is #{rsc}"
- gr += "\"#{link.tail_uuid}\" [href=\"#{rsc}/#{link.tail_uuid}\"];"
- gr += "\"#{link.head_uuid}\" -> \"#{link.tail_uuid}\" [label=\" provided\"];"
- generate_edges(gr, link.tail_uuid)
- end
-
- gr
- end
-
def show
return super if !@object
@provenance = []
Link.where(head_uuid: @sourcedata.keys | @output2job.keys).each do |link|
if link.link_class == 'resources' and link.name == 'wants'
@protected[link.head_uuid] = true
+ if link.tail_uuid == current_user.uuid
+ @is_persistent = true
+ end
end
end
Link.where(tail_uuid: @sourcedata.keys).each do |link|
if link.link_class == 'data_origin'
@sourcedata[link.tail_uuid][:data_origins] ||= []
- @sourcedata[link.tail_uuid][:data_origins] << [link.name, link.head_kind, link.head_uuid]
+ @sourcedata[link.tail_uuid][:data_origins] << [link.name, link.head_uuid]
end
end
Collection.where(uuid: @sourcedata.keys).each do |collection|
end
end
- require 'open3'
-
- gr = "digraph {"
- gr += "node [fontsize=8];"
- gr += "edge [dir=back,fontsize=8];"
-
- gr = generate_edges(gr, @object.uuid)
-
- gr += "}"
- @prov_svg = ""
-
- Open3.popen2("dot", "-Tsvg") do |stdin, stdout, wait_thr|
- stdin.print(gr)
- stdin.close
- wait_thr.value
- @prov_svg = stdout.read()
- stdout.close()
+ Collection.where(uuid: @object.uuid).each do |u|
+ puts request
+ @prov_svg = ProvenanceHelper::create_provenance_graph(u.provenance, "provenance_svg",
+ {:request => request,
+ :direction => :bottom_up,
+ :combine_jobs => :script_only}) rescue nil
+ @used_by_svg = ProvenanceHelper::create_provenance_graph(u.used_by, "used_by_svg",
+ {:request => request,
+ :direction => :top_down,
+ :combine_jobs => :script_only,
+ :pdata_only => true}) rescue nil
end
-
- @prov_svg = @prov_svg.sub(/<\?xml.*?\?>/m, "")
- @prov_svg = @prov_svg.sub(/<!DOCTYPE.*?>/m, "")
end
protected
projects / arvados.git / blobdiff