Mercurial > repos > shellac > guppy_basecaller
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"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author | shellac |
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date | Sat, 02 May 2020 07:14:21 -0400 |
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#!/Users/pldms/Development/Projects/2020/david-matthews-galaxy/guppy_basecaller/env/bin/python3 # Copyright (c) 2009 Chris Moyer http://coredumped.org/ # # Permission is hereby granted, free of charge, to any person obtaining a # copy of this software and associated documentation files (the # "Software"), to deal in the Software without restriction, including # without limitation the rights to use, copy, modify, merge, publish, dis- # tribute, sublicense, and/or sell copies of the Software, and to permit # persons to whom the Software is furnished to do so, subject to the fol- # lowing conditions: # # The above copyright notice and this permission notice shall be included # in all copies or substantial portions of the Software. # # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS # OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABIL- # ITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT # SHALL THE AUTHOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS # # Elastic Load Balancer Tool # VERSION = "0.2" usage = """%prog [options] [command] Commands: list|ls List all Elastic Load Balancers delete <name> Delete ELB <name> get <name> Get all instances associated with <name> create <name> Create an ELB; -z and -l are required add <name> <instances> Add <instances> in ELB <name> remove|rm <name> <instances> Remove <instances> from ELB <name> reap <name> Remove terminated instances from ELB <name> enable|en <name> <zone> Enable Zone <zone> for ELB <name> disable <name> <zone> Disable Zone <zone> for ELB <name> addl <name> Add listeners (specified by -l) to the ELB <name> rml <name> <port> Remove Listener(s) specified by the port on the ELB <name> """ def find_elb(elb, name): try: elbs = elb.get_all_load_balancers(name) except boto.exception.BotoServerError as se: if se.code == 'LoadBalancerNotFound': elbs = [] else: raise if len(elbs) < 1: print "No load balancer by the name of %s found" % name return None elif len(elbs) > 1: print "More than one elb matches %s?" % name return None # Should not happen if name not in elbs[0].name: print "No load balancer by the name of %s found" % name return None return elbs[0] def list(elb): """List all ELBs""" print "%-20s %s" % ("Name", "DNS Name") print "-" * 80 for b in elb.get_all_load_balancers(): print "%-20s %s" % (b.name, b.dns_name) def check_valid_region(conn, region): if conn is None: print 'Invalid region (%s)' % region sys.exit(1) def get(elb, name): """Get details about ELB <name>""" b = find_elb(elb, name) if b: print "=" * 80 print "Name: %s" % b.name print "DNS Name: %s" % b.dns_name if b.canonical_hosted_zone_name: chzn = b.canonical_hosted_zone_name print "Canonical hosted zone name: %s" % chzn if b.canonical_hosted_zone_name_id: chznid = b.canonical_hosted_zone_name_id print "Canonical hosted zone name id: %s" % chznid print print "Health Check: %s" % b.health_check print print "Listeners" print "---------" print "%-8s %-8s %s" % ("IN", "OUT", "PROTO") for l in b.listeners: print "%-8s %-8s %s" % (l[0], l[1], l[2]) print print " Zones " print "---------" for z in b.availability_zones: print z print # Make map of all instance Id's to Name tags import boto from boto.compat.six import iteritems if not options.region: ec2 = boto.connect_ec2() else: ec2 = boto.ec2.connect_to_region(options.region) check_valid_region(ec2, options.region) instance_health = b.get_instance_health() instances = [state.instance_id for state in instance_health] names = dict((k,'') for k in instances) for i in ec2.get_only_instances(): if i.id in instances: names[i.id] = i.tags.get('Name', '') name_column_width = max([4] + [len(v) for k,v in iteritems(names)]) + 2 print "Instances" print "---------" print "%-12s %-15s %-*s %s" % ("ID", "STATE", name_column_width, "NAME", "DESCRIPTION") for state in instance_health: print "%-12s %-15s %-*s %s" % (state.instance_id, state.state, name_column_width, names[state.instance_id], state.description) print def create(elb, name, zones, listeners): """Create an ELB named <name>""" l_list = [] for l in listeners: l = l.split(",") if l[2] == 'HTTPS': l_list.append((int(l[0]), int(l[1]), l[2], l[3])) else: l_list.append((int(l[0]), int(l[1]), l[2])) b = elb.create_load_balancer(name, zones, l_list) return get(elb, name) def delete(elb, name): """Delete this ELB""" b = find_elb(elb, name) if b: b.delete() print "Load Balancer %s deleted" % name def add_instances(elb, name, instances): """Add <instance> to ELB <name>""" b = find_elb(elb, name) if b: b.register_instances(instances) return get(elb, name) def remove_instances(elb, name, instances): """Remove instance from elb <name>""" b = find_elb(elb, name) if b: b.deregister_instances(instances) return get(elb, name) def reap_instances(elb, name): """Remove terminated instances from elb <name>""" b = find_elb(elb, name) if b: for state in b.get_instance_health(): if (state.state == 'OutOfService' and state.description == 'Instance is in terminated state.'): b.deregister_instances([state.instance_id]) return get(elb, name) def enable_zone(elb, name, zone): """Enable <zone> for elb""" b = find_elb(elb, name) if b: b.enable_zones([zone]) return get(elb, name) def disable_zone(elb, name, zone): """Disable <zone> for elb""" b = find_elb(elb, name) if b: b.disable_zones([zone]) return get(elb, name) def add_listener(elb, name, listeners): """Add listeners to a given load balancer""" l_list = [] for l in listeners: l = l.split(",") l_list.append((int(l[0]), int(l[1]), l[2])) b = find_elb(elb, name) if b: b.create_listeners(l_list) return get(elb, name) def rm_listener(elb, name, ports): """Remove listeners from a given load balancer""" b = find_elb(elb, name) if b: b.delete_listeners(ports) return get(elb, name) if __name__ == "__main__": try: import readline except ImportError: pass import boto import sys from optparse import OptionParser from boto.mashups.iobject import IObject parser = OptionParser(version=VERSION, usage=usage) parser.add_option("-z", "--zone", help="Operate on zone", action="append", default=[], dest="zones") parser.add_option("-l", "--listener", help="Specify Listener in,out,proto", action="append", default=[], dest="listeners") parser.add_option("-r", "--region", help="Region to connect to", action="store", dest="region") (options, args) = parser.parse_args() if len(args) < 1: parser.print_help() sys.exit(1) if not options.region: elb = boto.connect_elb() else: import boto.ec2.elb elb = boto.ec2.elb.connect_to_region(options.region) check_valid_region(elb, options.region) print "%s" % (elb.region.endpoint) command = args[0].lower() if command in ("ls", "list"): list(elb) elif command == "get": get(elb, args[1]) elif command == "create": if not options.listeners: print "-l option required for command create" sys.exit(1) if not options.zones: print "-z option required for command create" sys.exit(1) create(elb, args[1], options.zones, options.listeners) elif command == "delete": delete(elb, args[1]) elif command in ("add", "put"): add_instances(elb, args[1], args[2:]) elif command in ("rm", "remove"): remove_instances(elb, args[1], args[2:]) elif command == "reap": reap_instances(elb, args[1]) elif command in ("en", "enable"): enable_zone(elb, args[1], args[2]) elif command == "disable": disable_zone(elb, args[1], args[2]) elif command == "addl": if not options.listeners: print "-l option required for command addl" sys.exit(1) add_listener(elb, args[1], options.listeners) elif command == "rml": if not args[2:]: print "port required" sys.exit(2) rm_listener(elb, args[1], args[2:])