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#add_mount_engine Quorum::Generators::InstallGenerator
#add_resque_mount_engine Quorum::Generators::InstallGenerator
#banner Trollop::Parser
blast_bin Quorum
blast_db Quorum
blast_log_dir Quorum
blast_remote Quorum
blast_script Quorum
#blast_script Quorum
blast_ssh_host Quorum
blast_ssh_options Quorum
blast_ssh_user Quorum
blast_threads Quorum
blast_tmp_dir Quorum
blastn Quorum
blastp Quorum
blastx Quorum
#blue Quorum::Helpers::Colors
#bold Quorum::Helpers::Colors
#build_blast_db_data Quorum::BuildBlastDB
#change_file_permissions Quorum::Generators::InstallGenerator
#check_dependencies Quorum::Generators::InstallGenerator
#color Quorum::Helpers::Colors
#conflicts Trollop::Parser
#copy_directories Quorum::Generators::ViewsGenerator
#copy_images Quorum::Generators::ImagesGenerator
#copy_locale Quorum::Generators::InstallGenerator
#copy_quorum Quorum::Generators::InstallGenerator
#copy_styles Quorum::Generators::StylesGenerator
#create Quorum::JobsController
#create_hash Quorum::Sequence
#create_quorum_log_dir Quorum::Generators::InstallGenerator
#create_quorum_tmp_dir Quorum::Generators::InstallGenerator
#date Top Level Namespace
#depends Trollop::Parser
die Trollop
#die Trollop::Parser
#discover_input_sequence_type Quorum::Sequence
#educate Trollop::Parser
#execute_blast Quorum::SearchTools::Blast
#execute_blast_db_cmd Quorum::FetchTools::BlastDb
#fetch_quorum_blast_sequence Quorum::Job
#gap_opening_extension Quorum::BlastpJob
#gap_opening_extension Quorum::BlastnJob
#gap_opening_extension Quorum::BlastxJob
#gap_opening_extension Quorum::TblastnJob
#gap_opening_extension= Quorum::BlastpJob
#gap_opening_extension= Quorum::BlastnJob
#gap_opening_extension= Quorum::TblastnJob
#gap_opening_extension= Quorum::BlastxJob
#gap_opening_extension_values Quorum::BlastpJob
#gap_opening_extension_values Quorum::BlastnJob
#gap_opening_extension_values Quorum::BlastxJob
#gap_opening_extension_values Quorum::TblastnJob
#gapped_alignment? Quorum::BlastpJob
#gapped_alignment? Quorum::BlastnJob
#gapped_alignment? Quorum::BlastxJob
#gapped_alignment? Quorum::TblastnJob
#get_quorum_blast_hit_sequence Quorum::JobsController
#get_quorum_search_results Quorum::JobsController
#green Quorum::Helpers::Colors
#grey Quorum::Helpers::Colors
#index Quorum::JobsController
#initialize Trollop::Parser
#initialize Quorum::Logger
#k Top Level Namespace
#leftovers Trollop::Parser
#log Quorum::Logger
#magenta Quorum::Helpers::Colors
max_sequence_size Quorum
#mount_engine_exists? Quorum::Generators::InstallGenerator
#new Quorum::JobsController
#opt Trollop::Parser
options Trollop
#parse Trollop::Parser
#parse_date_parameter Trollop::Parser
perform Workers::System
#read_routes_file Quorum::Generators::InstallGenerator
#red Quorum::Helpers::Colors
#resque_mount_engine_exists? Quorum::Generators::InstallGenerator
#send_quorum_blast_hit_sequence Quorum::JobsController
#set_flash_message Quorum::Helpers
#set_mount_engines Quorum::Generators::InstallGenerator
#show Quorum::JobsController
#show_readme Quorum::Generators::InstallGenerator
#specs Trollop::Parser
#stop_on Trollop::Parser
#stop_on_unknown Trollop::Parser
tblastn Quorum
#version Trollop::Parser
#white Quorum::Helpers::Colors
#width Trollop::Parser
with_standard_exception_handling Trollop
#wrap Trollop::Parser
#write_input_sequence_to_file Quorum::Sequence
#yellow Quorum::Helpers::Colors