if component[:script_parameters]
component[:script_parameters].each do |param, value_info|
if value_info.is_a? Hash
- if resource_class_for_uuid(value_info[:value]) == Link
+ value_info_partitioned = value_info[:value].partition('/') if value_info[:value].andand.class.eql?(String)
+ value_info_value = value_info_partitioned ? value_info_partitioned[0] : value_info[:value]
+ value_info_class = resource_class_for_uuid value_info_value
+ if value_info_class == Link
# Use the link target, not the link itself, as script
# parameter; but keep the link info around as well.
link = Link.find value_info[:value]
value_info[:link_uuid] = nil
value_info[:link_name] = nil
end
+ if value_info_class == Collection
+ # to ensure reproducibility, the script_parameter for a
+ # collection should be the portable_data_hash
+ # keep the collection name and uuid for human-readability
+ obj = Collection.find value_info_value
+ if value_info_partitioned
+ value_info[:value] = obj.portable_data_hash + value_info_partitioned[1] + value_info_partitioned[2]
+ value_info[:selection_name] = obj.name ? obj.name + value_info_partitioned[1] + value_info_partitioned[2] : obj.name
+ else
+ value_info[:value] = obj.portable_data_hash
+ value_info[:selection_name] = obj.name
+ end
+ value_info[:selection_uuid] = obj.uuid
+ end
end
end
end
def graph(pipelines)
return nil, nil if params['tab_pane'] != "Graph"
- count = {}
provenance = {}
pips = {}
n = 1
+ # When comparing more than one pipeline, "pips" stores bit fields that
+ # indicates which objects are part of which pipelines.
+
pipelines.each do |p|
collections = []
+ hashes = []
+ jobs = []
+
+ p[:components].each do |k, v|
+ provenance["component_#{p[:uuid]}_#{k}"] = v
+
+ collections << v[:output_uuid] if v[:output_uuid]
+ jobs << v[:job][:uuid] if v[:job]
+ end
+
+ jobs = jobs.compact.uniq
+ if jobs.any?
+ Job.where(uuid: jobs).each do |j|
+ job_uuid = j.uuid
- p.components.each do |k, v|
- j = v[:job] || next
+ provenance[job_uuid] = j
+ pips[job_uuid] = 0 unless pips[job_uuid] != nil
+ pips[job_uuid] |= n
- uuid = j[:uuid].intern
- provenance[uuid] = j
- pips[uuid] = 0 unless pips[uuid] != nil
- pips[uuid] |= n
+ hashes << j[:output] if j[:output]
+ ProvenanceHelper::find_collections(j) do |hash, uuid|
+ collections << uuid if uuid
+ hashes << hash if hash
+ end
- collections << j[:output]
- ProvenanceHelper::find_collections(j[:script_parameters]).each do |k|
- collections << k
+ if j[:script_version]
+ script_uuid = j[:script_version]
+ provenance[script_uuid] = {:uuid => script_uuid}
+ pips[script_uuid] = 0 unless pips[script_uuid] != nil
+ pips[script_uuid] |= n
+ end
end
+ end
- uuid = j[:script_version].intern
- provenance[uuid] = {:uuid => uuid}
- pips[uuid] = 0 unless pips[uuid] != nil
- pips[uuid] |= n
+ hashes = hashes.compact.uniq
+ if hashes.any?
+ Collection.where(portable_data_hash: hashes).each do |c|
+ hash_uuid = c.portable_data_hash
+ provenance[hash_uuid] = c
+ pips[hash_uuid] = 0 unless pips[hash_uuid] != nil
+ pips[hash_uuid] |= n
+ end
end
- Collection.where(uuid: collections.compact).each do |c|
- uuid = c.uuid.intern
- provenance[uuid] = c
- pips[uuid] = 0 unless pips[uuid] != nil
- pips[uuid] |= n
+ collections = collections.compact.uniq
+ if collections.any?
+ Collection.where(uuid: collections).each do |c|
+ collection_uuid = c.uuid
+ provenance[collection_uuid] = c
+ pips[collection_uuid] = 0 unless pips[collection_uuid] != nil
+ pips[collection_uuid] |= n
+ end
end
n = n << 1
end
def show
- @pipelines = [@object]
-
- if params[:compare]
- PipelineInstance.where(uuid: params[:compare]).each do |p|
- @pipelines << p
- end
+ # the #show action can also be called by #compare, which does its own work to set up @pipelines
+ unless defined? @pipelines
+ @pipelines = [@object]
end
provenance, pips = graph(@pipelines)
:request => request,
:all_script_parameters => true,
:combine_jobs => :script_and_version,
- :script_version_nodes => true,
- :pips => pips }
+ :pips => pips,
+ :only_components => true,
+ :no_docker => true,
+ :no_log => true}
end
super
end
if params['tab_pane'] == "Graph"
- provenance, pips = graph(@objects)
-
@pipelines = @objects
-
- if provenance
- @prov_svg = ProvenanceHelper::create_provenance_graph provenance, "provenance_svg", {
- :request => request,
- :all_script_parameters => true,
- :combine_jobs => :script_and_version,
- :script_version_nodes => true,
- :pips => pips }
- end
end
@object = @objects.first
%w(Compare Graph)
end
- def index
- @limit = 20
- super
- end
-
protected
def for_comparison v
if v.is_a? Hash or v.is_a? Array
end
end
+ def load_filters_and_paging_params
+ params[:limit] = 20
+ super
+ end
+
def find_objects_by_uuid
@objects = model_class.where(uuid: params[:uuids])
end
-
end
projects / arvados.git / blobdiff