galaxy/config/tool_shed.yml.sample

uwsgi:

  # The address and port on which to listen.  By default, only listen to
  # localhost (tool_shed will not be accessible over the network).  Use
  # '0.0.0.0' to listen on all available network interfaces.
  http: 127.0.0.1:9009

  threads: 8

  http-raw-body: True

  offload-threads: 8

  module: galaxy.webapps.tool_shed.buildapp:uwsgi_app()

tool_shed:

  # Verbosity of console log messages.  Acceptable values can be found
  # here: https://docs.python.org/2/library/logging.html#logging-levels
  #log_level: DEBUG

  # By default, the Tool Shed uses a SQLite database at
  # 'database/community.sqlite'.  You may use a SQLAlchemy connection
  # string to specify an external database instead.  This string takes
  # many options which are explained in detail in the config file
  # documentation.
  #database_connection: sqlite:///./database/community.sqlite?isolation_level=IMMEDIATE

  # Where the hgweb.config file is stored. The default is the Galaxy
  # installation directory.
  #hgweb_config_dir: None

  # Where tool shed repositories are stored.
  #file_path: database/community_files

  # Temporary storage for additional datasets, this should be shared
  # through the cluster
  #new_file_path: database/tmp

  # File containing old-style genome builds
  #builds_file_path: tool-data/shared/ucsc/builds.txt

  # Format string used when showing date and time information. The
  # string may contain: - the directives used by Python time.strftime()
  # function (see
  # https://docs.python.org/2/library/time.html#time.strftime ), -
  # $locale (complete format string for the server locale), - $iso8601
  # (complete format string as specified by ISO 8601 international
  # standard).
  #pretty_datetime_format: $locale (UTC)

  # -- Repository and Tool search Using the script located at
  # scripts/build_ts_whoosh_index.py you can generate search index and
  # allow full text API searching over the repositories and tools within
  # the Tool Shed given that you specify the following two config
  # options.
  #toolshed_search_on: True

  # -- Repository and Tool search Using the script located at
  # scripts/build_ts_whoosh_index.py you can generate search index and
  # allow full text API searching over the repositories and tools within
  # the Tool Shed given that you specify the following two config
  # options.
  #whoosh_index_dir: database/toolshed_whoosh_indexes

  # For searching repositories at /api/repositories:
  #repo_name_boost: 0.9

  # For searching repositories at /api/repositories:
  #repo_description_boost: 0.6

  # For searching repositories at /api/repositories:
  #repo_long_description_boost: 0.5

  # For searching repositories at /api/repositories:
  #repo_homepage_url_boost: 0.3

  # For searching repositories at /api/repositories:
  #repo_remote_repository_url_boost: 0.2

  # For searching repositories at /api/repositories:
  #repo_owner_username_boost: 0.3

  # For searching tools at /api/tools
  #tool_name_boost: 1.2

  # For searching tools at /api/tools
  #tool_description_boost: 0.6

  # For searching tools at /api/tools
  #tool_help_boost: 0.4

  # For searching tools at /api/tools
  #tool_repo_owner_username: 0.3

  # You can enter tracking code here to track visitor's behavior through
  # your Google Analytics account. Example: UA-XXXXXXXX-Y
  #ga_code: None

  # The Tool Shed encodes various internal values when these values will
  # be output in some format (for example, in a URL or cookie).  You
  # should set a key to be used by the algorithm that encodes and
  # decodes these values.  It can be any string.  If left unchanged,
  # anyone could construct a cookie that would grant them access to
  # others' sessions. One simple way to generate a value for this is
  # with the shell command:   python -c 'import time; print time.time()'
  # | md5sum | cut -f 1 -d ' '
  #id_secret: changethisinproductiontoo

  # User authentication can be delegated to an upstream proxy server
  # (usually Apache).  The upstream proxy should set a REMOTE_USER
  # header in the request. Enabling remote user disables regular logins.
  # For more information, see:
  # https://wiki.galaxyproject.org/Admin/Config/ApacheProxy
  #use_remote_user: False

  # If use_remote_user is enabled, anyone who can log in to the Galaxy
  # host may impersonate any other user by simply sending the
  # appropriate header. Thus a secret shared between the upstream proxy
  # server, and Galaxy is required. If anyone other than the Galaxy user
  # is using the server, then apache/nginx should pass a value in the
  # header 'GX_SECRET' that is identical the one below
  #remote_user_secret: changethisinproductiontoo

  # Configuration for debugging middleware
  #debug: False

  # Check for WSGI compliance.
  #use_lint: False

  # NEVER enable this on a public site (even test or QA)
  #use_interactive: True

  # Administrative users - set this to a comma-separated list of valid
  # Tool Shed users (email addresses).  These users will have access to
  # the Admin section of the server, and will have access to create
  # users, groups, roles, libraries, and more.
  #admin_users: None

  # Force everyone to log in (disable anonymous access)
  #require_login: False

  # For use by email messages sent from the tool shed
  #smtp_server: smtp.your_tool_shed_server

  # For use by email messages sent from the tool shed
  #email_from: your_tool_shed_email@server

  # If your SMTP server requires a username and password, you can
  # provide them here (password in cleartext here, but if your server
  # supports STARTTLS it will be sent over the network encrypted).
  #smtp_username: None

  # If your SMTP server requires a username and password, you can
  # provide them here (password in cleartext here, but if your server
  # supports STARTTLS it will be sent over the network encrypted).
  #smtp_password: None

  # If your SMTP server requires SSL from the beginning of the
  # connection
  #smtp_ssl: False

  # The URL linked by the "Support" link in the "Help" menu.
  #support_url: https://wiki.galaxyproject.org/Support

  # Address to join mailing list
  #mailing_join_addr: galaxy-announce-join@bx.psu.edu

  # Write thread status periodically to 'heartbeat.log' (careful, uses
  # disk  space rapidly!)
  #use_heartbeat: True

  # Profiling middleware (cProfile based)
  #use_profile: True

  # Enable creation of Galaxy flavor Docker Image
  #enable_galaxy_flavor_docker_image: False

  # Show a message box under the masthead.
  #message_box_visible: False

  # Show a message box under the masthead.
  #message_box_content: None

  # Show a message box under the masthead.
  #message_box_class: info

  # Serving static files (needed if running standalone)
  #static_enabled: True

  # Serving static files (needed if running standalone)
  #static_cache_time: 360

  # Serving static files (needed if running standalone)
  #static_dir: static/

  # Serving static files (needed if running standalone)
  #static_images_dir: static/images

  # Serving static files (needed if running standalone)
  #static_favicon_dir: static/favicon.ico

  # Serving static files (needed if running standalone)
  #static_scripts_dir: static/scripts/

  # Serving static files (needed if running standalone)
  #static_style_dir: static/style/blue