myGrid/t2-server-gem

#!/usr/bin/env ruby
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# Author: Robert Haines

require 'rubygems'
require 't2-server-cli'

include T2Server::CLI

# set up options
options = {}
ports = []
conn_params, creds = register_options("Usage: t2-get-output [options] " +
    "server-address run-id") do |opt|
  opt.separator "  Where server-address is the full URI of the server to"
  opt.separator "  connect to, e.g.: http://example.com:8080/taverna, run-ids"
  opt.separator "  are the id numbers of the runs you want to collect output"
  opt.separator "  from and [options] can be:"
  opt.on("-r", "--refs", "Return references to the output data rather than " +
    "the data itself.") do
    options[:refs] = true
  end
  opt.on("-o", "--output=OUTPUT", "Return the named output port. If none " +
    "are specified then list all the output ports.") do |val|
    ports << val.chomp
  end
  opt.on("-N", "--name", "Return the name of the run. Supported in Taverna "\
    "Server versions 2.5.0 and up.") do
      options[:name] = true
  end
  opt.on("-x", "--exitcode", "Return the exitcode of the run.") do
    options[:exitcode] = true
  end
  opt.on("-e", "--stderr", 'Return the "standard error" output of the run.') do
    options[:stderr] = true
  end
  opt.on("-s", "--stdout", 'Return the "standard out" output of the run.') do
    options[:stdout] = true
  end
  opt.on("-t", "--total-size", "Return the total size of the data in the " +
    "output.") do
    options[:tsize] = true
  end
  opt.on("-T", "--types", "Return the mime types of singleton ports.") do
    options[:types] = true
  end
end

# get run id and server address from the arguments
run_id = ""
address = ""
for arg in ARGV
  argc = arg.chomp
  if argc.match(/https?:\/\//).nil?
    run_id = argc
  else
    address = argc
  end
end

uri, creds = parse_address(address, creds)

if run_id.empty?
  puts opts
  exit 1
end

# connect...
begin
  server = T2Server::Server.new(uri, conn_params)
  run = server.run(run_id, creds)

  puts "Run name: #{run.name}" if options[:name]

  ports = run.output_ports.keys if ports.empty?
  ports.each do |p|
    port = run.output_port(p)
    puts "#{port.name}"
    if options[:refs]
      print "  Reference: "
      p port.reference
    else
      print "  Value: "
      p port.value
    end

    if options[:types]
      print "   Type: "
      p port.type
    end

    puts "  Total data size: #{port.total_size}" if options[:tsize]
  end

  puts "Exitcode: #{run.exitcode}" if options[:exitcode]

  puts "Stdout: #{run.stdout}" if options[:stdout]

  puts "Stderr: #{run.stderr}" if options[:stderr]
rescue RuntimeError => e
  puts e
  exit 1
end