#!/usr/bin/env ruby
+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: AGPL-3.0
# Take two input parameters: a collection uuid and reason
# Get "src_collection" with the given uuid
# Set portable_data_hash to "d41d8cd98f00b204e9800998ecf8427e+0"
require 'trollop'
+require './lib/salvage_collection'
+include SalvageCollection
opts = Trollop::options do
banner ''
opt :reason, "Reason for salvaging.", type: :string, required: false
end
-require File.dirname(__FILE__) + '/../config/environment'
-require 'arvados/keep'
-include ApplicationHelper
-require 'tempfile'
-require 'shellwords'
-
-def salvage_collection uuid, reason
- act_as_system_user do
- src_collection = Collection.find_by_uuid uuid
- if !src_collection
- $stderr.puts "No collection found for #{uuid}. Returning."
- exit 1
- end
-
- begin
- src_manifest = src_collection.manifest_text || ''
-
- # Get all the locators from the original manifest
- locators = []
- src_manifest.each_line do |line|
- line.split(' ').each do |word|
- if match = Keep::Locator::LOCATOR_REGEXP.match(word)
- word = word.split('+')[0..1].join('+') # get rid of any hints
- locators << word if !word.start_with?('00000000000000000000000000000000')
- end
- end
- end
- locators << 'd41d8cd98f00b204e9800998ecf8427e+0' if !locators.any?
-
- # create new collection using 'arv-put' with original manifest_text as the data
- temp_file = Tempfile.new('temp')
- temp_file.write(src_manifest)
- temp_file.close
- new_manifest = %x(arv-put --as-stream --use-filename invalid_manifest_text.txt #{Shellwords::shellescape(temp_file.path)})
- temp_file.unlink
-
- new_collection = Collection.new
-
- total_size = 0
- locators.each do |locator|
- total_size += locator.split('+')[1].to_i
- end
- new_manifest += (". #{locators.join(' ')} 0:#{total_size}:salvaged_data\n")
-
- new_collection.name = "salvaged from #{src_collection.uuid}, #{src_collection.portable_data_hash}"
- new_collection.manifest_text = new_manifest
- new_collection.portable_data_hash = Digest::MD5.hexdigest(new_manifest)
-
- created = new_collection.save!
- raise "New collection creation failed." if !created
-
- $stderr.puts "Salvaged manifest and data for #{uuid} are in #{new_collection.uuid}."
- puts "Created new collection #{created}"
- rescue => error
- $stderr.puts "Error creating collection for #{uuid}: #{error}"
- exit 1
- end
-
- begin
- # update src_collection collection name, pdh, and manifest_text
- src_collection.name = (src_collection.name || '') + ' (' + (reason || '') + '; salvaged data at ' + created + ')'
- src_collection.portable_data_hash = 'd41d8cd98f00b204e9800998ecf8427e+0'
- src_collection.save!
- $stderr.puts "Collection #{uuid} emptied and renamed to #{src_collection.name.inspect}."
- rescue => error
- $stderr.puts "Error salvaging collection #{uuid}: #{error}"
- exit 1
- end
- end
-end
-
# Salvage the collection with the given uuid
-salvage_collection opts.uuid, opts.reason
+SalvageCollection.salvage_collection opts.uuid, opts.reason