+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: AGPL-3.0
+
class ContainerRequestsController < ApplicationController
+ skip_around_filter :require_thread_api_token, if: proc { |ctrl|
+ Rails.configuration.anonymous_user_token and
+ 'show' == ctrl.action_name
+ }
+
+ def generate_provenance(cr)
+ return if params['tab_pane'] != "Provenance"
+
+ nodes = {cr[:uuid] => cr}
+ child_crs = []
+ col_uuids = []
+ col_pdhs = []
+ col_uuids << cr[:output_uuid] if cr[:output_uuid]
+ col_pdhs += ProvenanceHelper::cr_input_pdhs(cr)
+
+ # Search for child CRs
+ if cr[:container_uuid]
+ child_crs = ContainerRequest.where(requesting_container_uuid: cr[:container_uuid])
+
+ child_crs.each do |child|
+ nodes[child[:uuid]] = child
+ col_uuids << child[:output_uuid] if child[:output_uuid]
+ col_pdhs += ProvenanceHelper::cr_input_pdhs(child)
+ end
+ end
+
+ output_cols = {} # Indexed by UUID
+ input_cols = {} # Indexed by PDH
+ output_pdhs = []
+
+ # Batch requests to get all related collections
+ # First fetch output collections by UUID.
+ Collection.filter([['uuid', 'in', col_uuids.uniq]]).each do |c|
+ output_cols[c[:uuid]] = c
+ output_pdhs << c[:portable_data_hash]
+ end
+ # Then, get only input collections by PDH. There could be more than one collection
+ # per PDH: the number of collections is used on the collection node label.
+ Collection.filter(
+ [['portable_data_hash', 'in', col_pdhs - output_pdhs]]).each do |c|
+ if input_cols[c[:portable_data_hash]]
+ input_cols[c[:portable_data_hash]] << c
+ else
+ input_cols[c[:portable_data_hash]] = [c]
+ end
+ end
+
+ @svg = ProvenanceHelper::create_provenance_graph(
+ nodes, "provenance_svg",
+ {
+ :request => request,
+ :direction => :top_down,
+ :output_collections => output_cols,
+ :input_collections => input_cols,
+ :cr_children_of => {
+ cr[:uuid] => child_crs.select{|child| child[:uuid]},
+ },
+ })
+ end
+
def show_pane_list
- %w(Status Log Advanced)
+ panes = %w(Status Log Provenance Advanced)
+ if @object.andand.state == 'Uncommitted'
+ panes = %w(Inputs) + panes - %w(Log Provenance)
+ end
+ panes
+ end
+
+ def show
+ generate_provenance(@object)
+ super
end
def cancel
redirect_to @object
end
end
+
+ def update
+ @updates ||= params[@object.class.to_s.underscore.singularize.to_sym]
+ input_obj = @updates[:mounts].andand[:"/var/lib/cwl/cwl.input.json"].andand[:content]
+ if input_obj
+ workflow = @object.mounts[:"/var/lib/cwl/workflow.json"][:content]
+ get_cwl_inputs(workflow).each do |input_schema|
+ if not input_obj.include? cwl_shortname(input_schema[:id])
+ next
+ end
+ required, primary_type, param_id = cwl_input_info(input_schema)
+ if input_obj[param_id] == ""
+ input_obj[param_id] = nil
+ elsif primary_type == "boolean"
+ input_obj[param_id] = input_obj[param_id] == "true"
+ elsif ["int", "long"].include? primary_type
+ input_obj[param_id] = input_obj[param_id].to_i
+ elsif ["float", "double"].include? primary_type
+ input_obj[param_id] = input_obj[param_id].to_f
+ elsif ["File", "Directory"].include? primary_type
+ re = CollectionsHelper.match_uuid_with_optional_filepath(input_obj[param_id])
+ if re
+ c = Collection.find(re[1])
+ input_obj[param_id] = {"class" => primary_type,
+ "location" => "keep:#{c.portable_data_hash}#{re[4]}",
+ "arv:collection" => input_obj[param_id]}
+ end
+ end
+ end
+ end
+ params[:merge] = true
+ begin
+ super
+ rescue => e
+ flash[:error] = e.to_s
+ show
+ end
+ end
+
+ def copy
+ src = @object
+
+ @object = ContainerRequest.new
+
+ # By default the copied CR won't be reusing containers, unless use_existing=true
+ # param is passed.
+ command = src.command
+ if params[:use_existing]
+ @object.use_existing = true
+ # Pass the correct argument to arvados-cwl-runner command.
+ if src.command[0] == 'arvados-cwl-runner'
+ command = src.command - ['--disable-reuse']
+ command.insert(1, '--enable-reuse')
+ end
+ else
+ @object.use_existing = false
+ # Pass the correct argument to arvados-cwl-runner command.
+ if src.command[0] == 'arvados-cwl-runner'
+ command = src.command - ['--enable-reuse']
+ command.insert(1, '--disable-reuse')
+ end
+ end
+
+ @object.command = command
+ @object.container_image = src.container_image
+ @object.cwd = src.cwd
+ @object.description = src.description
+ @object.environment = src.environment
+ @object.mounts = src.mounts
+ @object.name = src.name
+ @object.output_path = src.output_path
+ @object.priority = 1
+ @object.properties[:template_uuid] = src.properties[:template_uuid]
+ @object.runtime_constraints = src.runtime_constraints
+ @object.scheduling_parameters = src.scheduling_parameters
+ @object.state = 'Uncommitted'
+
+ # set owner_uuid to that of source, provided it is a project and writable by current user
+ current_project = Group.find(src.owner_uuid) rescue nil
+ if (current_project && current_project.writable_by.andand.include?(current_user.uuid))
+ @object.owner_uuid = src.owner_uuid
+ end
+
+ super
+ end
+
+ def index
+ @limit = 20
+ super
+ end
+
end
projects / arvados.git / blobdiff