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Versions: 8
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Contents
#!/usr/bin/env ruby
require 'rubygems'
require 'bundler/setup'
require 'optparse'
require 'sequenceserver'
# e.g:
# sequenceserver --config .sequenceserver.conf format_database
begin
# parse command line till first non-option, removing parsed options from ARGV
OptionParser.new do |opts|
opts.banner =<<BANNER
SUMMARY
custom, local, BLAST server
USAGE
sequenceserver [options] [subcommand] [subcommand's options]
Example:
# launch SequenceServer with the given config file
$ sequenceserver --config ~/.sequenceserver.ants.conf
# use the bundled database formatter utility to prepare databases for use
# with SequenceServer
$ sequenceserver format-databases
DESCRIPTION
SequenceServer lets you rapidly set up a BLAST+ server with an intuitive user
interface for use locally or over the web.
SUB-COMMANDS
format-databases:
prepare BLAST databases for use with SequenceServer
Run '#{$0} format-databases -h' for help.
OPTIONS
BANNER
opts.on('-c', '--config CONFIG_FILE', 'Use the given configuration file') do |config_file|
SequenceServer::App.config_file = File.expand_path(config_file)
end
end.order!
# of the remaining items in ARGV, the first one must be a subcommand
subcommand = ARGV.shift
if subcommand
# process subcommands now
case subcommand
when 'format-databases'
require 'sequenceserver/database_formatter'
exit
else
puts "invalid subcommand: #{subcommand}"
puts "Run '#{$0} -h' for help with command line options."
exit
end
end
rescue OptionParser::InvalidOption =>e
puts e
puts "Run '#{$0} -h' for help with command line options."
exit
end
# display name for tools like `ps`
$PROGRAM_NAME = 'sequenceserver'
SequenceServer::App.run!
Version data entries
8 entries across 8 versions & 1 rubygems