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1 | #!/usr/bin/env python |
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1 | #!/usr/bin/env python | |
2 | # encoding: utf-8 |
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2 | # encoding: utf-8 | |
3 | """ |
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3 | """ | |
4 | The ipcluster application. |
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4 | The ipcluster application. | |
5 |
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5 | |||
6 | Authors: |
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6 | Authors: | |
7 |
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7 | |||
8 | * Brian Granger |
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8 | * Brian Granger | |
9 | * MinRK |
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9 | * MinRK | |
10 |
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10 | |||
11 | """ |
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11 | """ | |
12 |
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12 | |||
13 | #----------------------------------------------------------------------------- |
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13 | #----------------------------------------------------------------------------- | |
14 | # Copyright (C) 2008-2011 The IPython Development Team |
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14 | # Copyright (C) 2008-2011 The IPython Development Team | |
15 | # |
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15 | # | |
16 | # Distributed under the terms of the BSD License. The full license is in |
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16 | # Distributed under the terms of the BSD License. The full license is in | |
17 | # the file COPYING, distributed as part of this software. |
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17 | # the file COPYING, distributed as part of this software. | |
18 | #----------------------------------------------------------------------------- |
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18 | #----------------------------------------------------------------------------- | |
19 |
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19 | |||
20 | #----------------------------------------------------------------------------- |
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20 | #----------------------------------------------------------------------------- | |
21 | # Imports |
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21 | # Imports | |
22 | #----------------------------------------------------------------------------- |
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22 | #----------------------------------------------------------------------------- | |
23 |
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23 | |||
24 | import errno |
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24 | import errno | |
25 | import logging |
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25 | import logging | |
26 | import os |
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26 | import os | |
27 | import re |
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27 | import re | |
28 | import signal |
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28 | import signal | |
29 |
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29 | |||
30 | from subprocess import check_call, CalledProcessError, PIPE |
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30 | from subprocess import check_call, CalledProcessError, PIPE | |
31 | import zmq |
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31 | import zmq | |
32 | from zmq.eventloop import ioloop |
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32 | from zmq.eventloop import ioloop | |
33 |
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33 | |||
34 | from IPython.config.application import Application, boolean_flag |
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34 | from IPython.config.application import Application, boolean_flag | |
35 | from IPython.config.loader import Config |
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35 | from IPython.config.loader import Config | |
36 | from IPython.core.application import BaseIPythonApplication |
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36 | from IPython.core.application import BaseIPythonApplication | |
37 | from IPython.core.profiledir import ProfileDir |
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37 | from IPython.core.profiledir import ProfileDir | |
38 | from IPython.utils.daemonize import daemonize |
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38 | from IPython.utils.daemonize import daemonize | |
39 | from IPython.utils.importstring import import_item |
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39 | from IPython.utils.importstring import import_item | |
40 | from IPython.utils.sysinfo import num_cpus |
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40 | from IPython.utils.sysinfo import num_cpus | |
41 | from IPython.utils.traitlets import (Int, Unicode, Bool, CFloat, Dict, List, Any, |
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41 | from IPython.utils.traitlets import (Int, Unicode, Bool, CFloat, Dict, List, Any, | |
42 | DottedObjectName) |
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42 | DottedObjectName) | |
43 |
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43 | |||
44 | from IPython.parallel.apps.baseapp import ( |
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44 | from IPython.parallel.apps.baseapp import ( | |
45 | BaseParallelApplication, |
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45 | BaseParallelApplication, | |
46 | PIDFileError, |
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46 | PIDFileError, | |
47 | base_flags, base_aliases |
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47 | base_flags, base_aliases | |
48 | ) |
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48 | ) | |
49 |
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49 | |||
50 |
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50 | |||
51 | #----------------------------------------------------------------------------- |
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51 | #----------------------------------------------------------------------------- | |
52 | # Module level variables |
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52 | # Module level variables | |
53 | #----------------------------------------------------------------------------- |
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53 | #----------------------------------------------------------------------------- | |
54 |
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54 | |||
55 |
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55 | |||
56 | default_config_file_name = u'ipcluster_config.py' |
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56 | default_config_file_name = u'ipcluster_config.py' | |
57 |
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57 | |||
58 |
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58 | |||
59 | _description = """Start an IPython cluster for parallel computing. |
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59 | _description = """Start an IPython cluster for parallel computing. | |
60 |
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60 | |||
61 | An IPython cluster consists of 1 controller and 1 or more engines. |
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61 | An IPython cluster consists of 1 controller and 1 or more engines. | |
62 | This command automates the startup of these processes using a wide |
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62 | This command automates the startup of these processes using a wide | |
63 | range of startup methods (SSH, local processes, PBS, mpiexec, |
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63 | range of startup methods (SSH, local processes, PBS, mpiexec, | |
64 | Windows HPC Server 2008). To start a cluster with 4 engines on your |
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64 | Windows HPC Server 2008). To start a cluster with 4 engines on your | |
65 | local host simply do 'ipcluster start --n=4'. For more complex usage |
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65 | local host simply do 'ipcluster start --n=4'. For more complex usage | |
66 | you will typically do 'ipython profile create mycluster --parallel', then edit |
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66 | you will typically do 'ipython profile create mycluster --parallel', then edit | |
67 | configuration files, followed by 'ipcluster start --profile=mycluster --n=4'. |
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67 | configuration files, followed by 'ipcluster start --profile=mycluster --n=4'. | |
68 | """ |
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68 | """ | |
69 |
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69 | |||
70 | _main_examples = """ |
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70 | _main_examples = """ | |
71 | ipcluster start --n=4 # start a 4 node cluster on localhost |
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71 | ipcluster start --n=4 # start a 4 node cluster on localhost | |
72 | ipcluster start -h # show the help string for the start subcmd |
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72 | ipcluster start -h # show the help string for the start subcmd | |
73 |
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73 | |||
74 | ipcluster stop -h # show the help string for the stop subcmd |
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74 | ipcluster stop -h # show the help string for the stop subcmd | |
75 | ipcluster engines -h # show the help string for the engines subcmd |
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75 | ipcluster engines -h # show the help string for the engines subcmd | |
76 | """ |
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76 | """ | |
77 |
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77 | |||
78 | _start_examples = """ |
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78 | _start_examples = """ | |
79 | ipython profile create mycluster --parallel # create mycluster profile |
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79 | ipython profile create mycluster --parallel # create mycluster profile | |
80 | ipcluster start --profile=mycluster --n=4 # start mycluster with 4 nodes |
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80 | ipcluster start --profile=mycluster --n=4 # start mycluster with 4 nodes | |
81 | """ |
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81 | """ | |
82 |
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82 | |||
83 | _stop_examples = """ |
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83 | _stop_examples = """ | |
84 | ipcluster stop --profile=mycluster # stop a running cluster by profile name |
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84 | ipcluster stop --profile=mycluster # stop a running cluster by profile name | |
85 | """ |
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85 | """ | |
86 |
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86 | |||
87 | _engines_examples = """ |
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87 | _engines_examples = """ | |
88 | ipcluster engines --profile=mycluster --n=4 # start 4 engines only |
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88 | ipcluster engines --profile=mycluster --n=4 # start 4 engines only | |
89 | """ |
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89 | """ | |
90 |
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90 | |||
91 |
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91 | |||
92 | # Exit codes for ipcluster |
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92 | # Exit codes for ipcluster | |
93 |
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93 | |||
94 | # This will be the exit code if the ipcluster appears to be running because |
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94 | # This will be the exit code if the ipcluster appears to be running because | |
95 | # a .pid file exists |
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95 | # a .pid file exists | |
96 | ALREADY_STARTED = 10 |
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96 | ALREADY_STARTED = 10 | |
97 |
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97 | |||
98 |
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98 | |||
99 | # This will be the exit code if ipcluster stop is run, but there is not .pid |
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99 | # This will be the exit code if ipcluster stop is run, but there is not .pid | |
100 | # file to be found. |
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100 | # file to be found. | |
101 | ALREADY_STOPPED = 11 |
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101 | ALREADY_STOPPED = 11 | |
102 |
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102 | |||
103 | # This will be the exit code if ipcluster engines is run, but there is not .pid |
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103 | # This will be the exit code if ipcluster engines is run, but there is not .pid | |
104 | # file to be found. |
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104 | # file to be found. | |
105 | NO_CLUSTER = 12 |
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105 | NO_CLUSTER = 12 | |
106 |
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106 | |||
107 |
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107 | |||
108 | #----------------------------------------------------------------------------- |
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108 | #----------------------------------------------------------------------------- | |
109 | # Main application |
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109 | # Main application | |
110 | #----------------------------------------------------------------------------- |
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110 | #----------------------------------------------------------------------------- | |
111 | start_help = """Start an IPython cluster for parallel computing |
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111 | start_help = """Start an IPython cluster for parallel computing | |
112 |
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112 | |||
113 | Start an ipython cluster by its profile name or cluster |
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113 | Start an ipython cluster by its profile name or cluster | |
114 | directory. Cluster directories contain configuration, log and |
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114 | directory. Cluster directories contain configuration, log and | |
115 | security related files and are named using the convention |
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115 | security related files and are named using the convention | |
116 | 'profile_<name>' and should be creating using the 'start' |
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116 | 'profile_<name>' and should be creating using the 'start' | |
117 | subcommand of 'ipcluster'. If your cluster directory is in |
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117 | subcommand of 'ipcluster'. If your cluster directory is in | |
118 | the cwd or the ipython directory, you can simply refer to it |
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118 | the cwd or the ipython directory, you can simply refer to it | |
119 | using its profile name, 'ipcluster start --n=4 --profile=<profile>`, |
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119 | using its profile name, 'ipcluster start --n=4 --profile=<profile>`, | |
120 | otherwise use the 'profile-dir' option. |
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120 | otherwise use the 'profile-dir' option. | |
121 | """ |
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121 | """ | |
122 | stop_help = """Stop a running IPython cluster |
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122 | stop_help = """Stop a running IPython cluster | |
123 |
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123 | |||
124 | Stop a running ipython cluster by its profile name or cluster |
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124 | Stop a running ipython cluster by its profile name or cluster | |
125 | directory. Cluster directories are named using the convention |
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125 | directory. Cluster directories are named using the convention | |
126 | 'profile_<name>'. If your cluster directory is in |
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126 | 'profile_<name>'. If your cluster directory is in | |
127 | the cwd or the ipython directory, you can simply refer to it |
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127 | the cwd or the ipython directory, you can simply refer to it | |
128 | using its profile name, 'ipcluster stop --profile=<profile>`, otherwise |
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128 | using its profile name, 'ipcluster stop --profile=<profile>`, otherwise | |
129 | use the '--profile-dir' option. |
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129 | use the '--profile-dir' option. | |
130 | """ |
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130 | """ | |
131 | engines_help = """Start engines connected to an existing IPython cluster |
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131 | engines_help = """Start engines connected to an existing IPython cluster | |
132 |
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132 | |||
133 | Start one or more engines to connect to an existing Cluster |
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133 | Start one or more engines to connect to an existing Cluster | |
134 | by profile name or cluster directory. |
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134 | by profile name or cluster directory. | |
135 | Cluster directories contain configuration, log and |
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135 | Cluster directories contain configuration, log and | |
136 | security related files and are named using the convention |
|
136 | security related files and are named using the convention | |
137 | 'profile_<name>' and should be creating using the 'start' |
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137 | 'profile_<name>' and should be creating using the 'start' | |
138 | subcommand of 'ipcluster'. If your cluster directory is in |
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138 | subcommand of 'ipcluster'. If your cluster directory is in | |
139 | the cwd or the ipython directory, you can simply refer to it |
|
139 | the cwd or the ipython directory, you can simply refer to it | |
140 | using its profile name, 'ipcluster engines --n=4 --profile=<profile>`, |
|
140 | using its profile name, 'ipcluster engines --n=4 --profile=<profile>`, | |
141 | otherwise use the 'profile-dir' option. |
|
141 | otherwise use the 'profile-dir' option. | |
142 | """ |
|
142 | """ | |
143 | stop_aliases = dict( |
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143 | stop_aliases = dict( | |
144 | signal='IPClusterStop.signal', |
|
144 | signal='IPClusterStop.signal', | |
145 | ) |
|
145 | ) | |
146 | stop_aliases.update(base_aliases) |
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146 | stop_aliases.update(base_aliases) | |
147 |
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147 | |||
148 | class IPClusterStop(BaseParallelApplication): |
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148 | class IPClusterStop(BaseParallelApplication): | |
149 | name = u'ipcluster' |
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149 | name = u'ipcluster' | |
150 | description = stop_help |
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150 | description = stop_help | |
151 | examples = _stop_examples |
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151 | examples = _stop_examples | |
152 | config_file_name = Unicode(default_config_file_name) |
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152 | config_file_name = Unicode(default_config_file_name) | |
153 |
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153 | |||
154 | signal = Int(signal.SIGINT, config=True, |
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154 | signal = Int(signal.SIGINT, config=True, | |
155 | help="signal to use for stopping processes.") |
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155 | help="signal to use for stopping processes.") | |
156 |
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156 | |||
157 | aliases = Dict(stop_aliases) |
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157 | aliases = Dict(stop_aliases) | |
158 |
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158 | |||
159 | def start(self): |
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159 | def start(self): | |
160 | """Start the app for the stop subcommand.""" |
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160 | """Start the app for the stop subcommand.""" | |
161 | try: |
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161 | try: | |
162 | pid = self.get_pid_from_file() |
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162 | pid = self.get_pid_from_file() | |
163 | except PIDFileError: |
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163 | except PIDFileError: | |
164 | self.log.critical( |
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164 | self.log.critical( | |
165 | 'Could not read pid file, cluster is probably not running.' |
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165 | 'Could not read pid file, cluster is probably not running.' | |
166 | ) |
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166 | ) | |
167 | # Here I exit with a unusual exit status that other processes |
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167 | # Here I exit with a unusual exit status that other processes | |
168 | # can watch for to learn how I existed. |
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168 | # can watch for to learn how I existed. | |
169 | self.remove_pid_file() |
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169 | self.remove_pid_file() | |
170 | self.exit(ALREADY_STOPPED) |
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170 | self.exit(ALREADY_STOPPED) | |
171 |
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171 | |||
172 | if not self.check_pid(pid): |
|
172 | if not self.check_pid(pid): | |
173 | self.log.critical( |
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173 | self.log.critical( | |
174 | 'Cluster [pid=%r] is not running.' % pid |
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174 | 'Cluster [pid=%r] is not running.' % pid | |
175 | ) |
|
175 | ) | |
176 | self.remove_pid_file() |
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176 | self.remove_pid_file() | |
177 | # Here I exit with a unusual exit status that other processes |
|
177 | # Here I exit with a unusual exit status that other processes | |
178 | # can watch for to learn how I existed. |
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178 | # can watch for to learn how I existed. | |
179 | self.exit(ALREADY_STOPPED) |
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179 | self.exit(ALREADY_STOPPED) | |
180 |
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180 | |||
181 | elif os.name=='posix': |
|
181 | elif os.name=='posix': | |
182 | sig = self.signal |
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182 | sig = self.signal | |
183 | self.log.info( |
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183 | self.log.info( | |
184 | "Stopping cluster [pid=%r] with [signal=%r]" % (pid, sig) |
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184 | "Stopping cluster [pid=%r] with [signal=%r]" % (pid, sig) | |
185 | ) |
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185 | ) | |
186 | try: |
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186 | try: | |
187 | os.kill(pid, sig) |
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187 | os.kill(pid, sig) | |
188 | except OSError: |
|
188 | except OSError: | |
189 | self.log.error("Stopping cluster failed, assuming already dead.", |
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189 | self.log.error("Stopping cluster failed, assuming already dead.", | |
190 | exc_info=True) |
|
190 | exc_info=True) | |
191 | self.remove_pid_file() |
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191 | self.remove_pid_file() | |
192 | elif os.name=='nt': |
|
192 | elif os.name=='nt': | |
193 | try: |
|
193 | try: | |
194 | # kill the whole tree |
|
194 | # kill the whole tree | |
195 | p = check_call(['taskkill', '-pid', str(pid), '-t', '-f'], stdout=PIPE,stderr=PIPE) |
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195 | p = check_call(['taskkill', '-pid', str(pid), '-t', '-f'], stdout=PIPE,stderr=PIPE) | |
196 | except (CalledProcessError, OSError): |
|
196 | except (CalledProcessError, OSError): | |
197 | self.log.error("Stopping cluster failed, assuming already dead.", |
|
197 | self.log.error("Stopping cluster failed, assuming already dead.", | |
198 | exc_info=True) |
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198 | exc_info=True) | |
199 | self.remove_pid_file() |
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199 | self.remove_pid_file() | |
200 |
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200 | |||
201 | engine_aliases = {} |
|
201 | engine_aliases = {} | |
202 | engine_aliases.update(base_aliases) |
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202 | engine_aliases.update(base_aliases) | |
203 | engine_aliases.update(dict( |
|
203 | engine_aliases.update(dict( | |
204 | n='IPClusterEngines.n', |
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204 | n='IPClusterEngines.n', | |
205 | engines = 'IPClusterEngines.engine_launcher_class', |
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205 | engines = 'IPClusterEngines.engine_launcher_class', | |
206 | daemonize = 'IPClusterEngines.daemonize', |
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206 | daemonize = 'IPClusterEngines.daemonize', | |
207 | )) |
|
207 | )) | |
208 | engine_flags = {} |
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208 | engine_flags = {} | |
209 | engine_flags.update(base_flags) |
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209 | engine_flags.update(base_flags) | |
210 |
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210 | |||
211 | engine_flags.update(dict( |
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211 | engine_flags.update(dict( | |
212 | daemonize=( |
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212 | daemonize=( | |
213 | {'IPClusterEngines' : {'daemonize' : True}}, |
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213 | {'IPClusterEngines' : {'daemonize' : True}}, | |
214 | """run the cluster into the background (not available on Windows)""", |
|
214 | """run the cluster into the background (not available on Windows)""", | |
215 | ) |
|
215 | ) | |
216 | )) |
|
216 | )) | |
217 | class IPClusterEngines(BaseParallelApplication): |
|
217 | class IPClusterEngines(BaseParallelApplication): | |
218 |
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218 | |||
219 | name = u'ipcluster' |
|
219 | name = u'ipcluster' | |
220 | description = engines_help |
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220 | description = engines_help | |
221 | examples = _engines_examples |
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221 | examples = _engines_examples | |
222 | usage = None |
|
222 | usage = None | |
223 | config_file_name = Unicode(default_config_file_name) |
|
223 | config_file_name = Unicode(default_config_file_name) | |
224 | default_log_level = logging.INFO |
|
224 | default_log_level = logging.INFO | |
225 | classes = List() |
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225 | classes = List() | |
226 | def _classes_default(self): |
|
226 | def _classes_default(self): | |
227 | from IPython.parallel.apps import launcher |
|
227 | from IPython.parallel.apps import launcher | |
228 | launchers = launcher.all_launchers |
|
228 | launchers = launcher.all_launchers | |
229 | eslaunchers = [ l for l in launchers if 'EngineSet' in l.__name__] |
|
229 | eslaunchers = [ l for l in launchers if 'EngineSet' in l.__name__] | |
230 | return [ProfileDir]+eslaunchers |
|
230 | return [ProfileDir]+eslaunchers | |
231 |
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231 | |||
232 | n = Int(num_cpus(), config=True, |
|
232 | n = Int(num_cpus(), config=True, | |
233 | help="""The number of engines to start. The default is to use one for each |
|
233 | help="""The number of engines to start. The default is to use one for each | |
234 | CPU on your machine""") |
|
234 | CPU on your machine""") | |
235 |
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235 | |||
236 | engine_launcher = Any(config=True, help="Deprecated, use engine_launcher_class") |
|
236 | engine_launcher = Any(config=True, help="Deprecated, use engine_launcher_class") | |
237 | def _engine_launcher_changed(self, name, old, new): |
|
237 | def _engine_launcher_changed(self, name, old, new): | |
238 | if isinstance(new, basestring): |
|
238 | if isinstance(new, basestring): | |
239 | self.log.warn("WARNING: %s.engine_launcher is deprecated as of 0.12," |
|
239 | self.log.warn("WARNING: %s.engine_launcher is deprecated as of 0.12," | |
240 | " use engine_launcher_class" % self.__class__.__name__) |
|
240 | " use engine_launcher_class" % self.__class__.__name__) | |
241 | self.engine_launcher_class = new |
|
241 | self.engine_launcher_class = new | |
242 | engine_launcher_class = DottedObjectName('LocalEngineSetLauncher', |
|
242 | engine_launcher_class = DottedObjectName('LocalEngineSetLauncher', | |
243 | config=True, |
|
243 | config=True, | |
244 | help="""The class for launching a set of Engines. Change this value |
|
244 | help="""The class for launching a set of Engines. Change this value | |
245 | to use various batch systems to launch your engines, such as PBS,SGE,MPIExec,etc. |
|
245 | to use various batch systems to launch your engines, such as PBS,SGE,MPIExec,etc. | |
246 | Each launcher class has its own set of configuration options, for making sure |
|
246 | Each launcher class has its own set of configuration options, for making sure | |
247 | it will work in your environment. |
|
247 | it will work in your environment. | |
248 |
|
248 | |||
249 | You can also write your own launcher, and specify it's absolute import path, |
|
249 | You can also write your own launcher, and specify it's absolute import path, | |
250 | as in 'mymodule.launcher.FTLEnginesLauncher`. |
|
250 | as in 'mymodule.launcher.FTLEnginesLauncher`. | |
251 |
|
251 | |||
252 | Examples include: |
|
252 | Examples include: | |
253 |
|
253 | |||
254 | LocalEngineSetLauncher : start engines locally as subprocesses [default] |
|
254 | LocalEngineSetLauncher : start engines locally as subprocesses [default] | |
255 | MPIExecEngineSetLauncher : use mpiexec to launch in an MPI environment |
|
255 | MPIExecEngineSetLauncher : use mpiexec to launch in an MPI environment | |
256 | PBSEngineSetLauncher : use PBS (qsub) to submit engines to a batch queue |
|
256 | PBSEngineSetLauncher : use PBS (qsub) to submit engines to a batch queue | |
257 | SGEEngineSetLauncher : use SGE (qsub) to submit engines to a batch queue |
|
257 | SGEEngineSetLauncher : use SGE (qsub) to submit engines to a batch queue | |
|
258 | LSFEngineSetLauncher : use LSF (bsub) to submit engines to a batch queue | |||
258 | SSHEngineSetLauncher : use SSH to start the controller |
|
259 | SSHEngineSetLauncher : use SSH to start the controller | |
259 | Note that SSH does *not* move the connection files |
|
260 | Note that SSH does *not* move the connection files | |
260 | around, so you will likely have to do this manually |
|
261 | around, so you will likely have to do this manually | |
261 | unless the machines are on a shared file system. |
|
262 | unless the machines are on a shared file system. | |
262 | WindowsHPCEngineSetLauncher : use Windows HPC |
|
263 | WindowsHPCEngineSetLauncher : use Windows HPC | |
|
264 | ||||
|
265 | If you are using one of IPython's builtin launchers, you can specify just the | |||
|
266 | prefix, e.g: | |||
|
267 | ||||
|
268 | c.IPClusterEngines.engine_launcher_class = 'SSH' | |||
|
269 | ||||
|
270 | or: | |||
|
271 | ||||
|
272 | ipcluster start --engines 'MPIExec' | |||
|
273 | ||||
263 | """ |
|
274 | """ | |
264 | ) |
|
275 | ) | |
265 | daemonize = Bool(False, config=True, |
|
276 | daemonize = Bool(False, config=True, | |
266 | help="""Daemonize the ipcluster program. This implies --log-to-file. |
|
277 | help="""Daemonize the ipcluster program. This implies --log-to-file. | |
267 | Not available on Windows. |
|
278 | Not available on Windows. | |
268 | """) |
|
279 | """) | |
269 |
|
280 | |||
270 | def _daemonize_changed(self, name, old, new): |
|
281 | def _daemonize_changed(self, name, old, new): | |
271 | if new: |
|
282 | if new: | |
272 | self.log_to_file = True |
|
283 | self.log_to_file = True | |
273 |
|
284 | |||
274 | aliases = Dict(engine_aliases) |
|
285 | aliases = Dict(engine_aliases) | |
275 | flags = Dict(engine_flags) |
|
286 | flags = Dict(engine_flags) | |
276 | _stopping = False |
|
287 | _stopping = False | |
277 |
|
288 | |||
278 | def initialize(self, argv=None): |
|
289 | def initialize(self, argv=None): | |
279 | super(IPClusterEngines, self).initialize(argv) |
|
290 | super(IPClusterEngines, self).initialize(argv) | |
280 | self.init_signal() |
|
291 | self.init_signal() | |
281 | self.init_launchers() |
|
292 | self.init_launchers() | |
282 |
|
293 | |||
283 | def init_launchers(self): |
|
294 | def init_launchers(self): | |
284 | self.engine_launcher = self.build_launcher(self.engine_launcher_class, 'EngineSet') |
|
295 | self.engine_launcher = self.build_launcher(self.engine_launcher_class, 'EngineSet') | |
285 | self.engine_launcher.on_stop(lambda r: self.loop.stop()) |
|
296 | self.engine_launcher.on_stop(lambda r: self.loop.stop()) | |
286 |
|
297 | |||
287 | def init_signal(self): |
|
298 | def init_signal(self): | |
288 | # Setup signals |
|
299 | # Setup signals | |
289 | signal.signal(signal.SIGINT, self.sigint_handler) |
|
300 | signal.signal(signal.SIGINT, self.sigint_handler) | |
290 |
|
301 | |||
291 | def build_launcher(self, clsname, kind=None): |
|
302 | def build_launcher(self, clsname, kind=None): | |
292 | """import and instantiate a Launcher based on importstring""" |
|
303 | """import and instantiate a Launcher based on importstring""" | |
293 | if '.' not in clsname: |
|
304 | if '.' not in clsname: | |
294 | # not a module, presume it's the raw name in apps.launcher |
|
305 | # not a module, presume it's the raw name in apps.launcher | |
295 | if kind and kind not in clsname: |
|
306 | if kind and kind not in clsname: | |
296 | # doesn't match necessary full class name, assume it's |
|
307 | # doesn't match necessary full class name, assume it's | |
297 | # just 'PBS' or 'MPIExec' prefix: |
|
308 | # just 'PBS' or 'MPIExec' prefix: | |
298 | clsname = clsname + kind + 'Launcher' |
|
309 | clsname = clsname + kind + 'Launcher' | |
299 | clsname = 'IPython.parallel.apps.launcher.'+clsname |
|
310 | clsname = 'IPython.parallel.apps.launcher.'+clsname | |
300 | try: |
|
311 | try: | |
301 | klass = import_item(clsname) |
|
312 | klass = import_item(clsname) | |
302 | except (ImportError, KeyError): |
|
313 | except (ImportError, KeyError): | |
303 | self.log.fatal("Could not import launcher class: %r"%clsname) |
|
314 | self.log.fatal("Could not import launcher class: %r"%clsname) | |
304 | self.exit(1) |
|
315 | self.exit(1) | |
305 |
|
316 | |||
306 | launcher = klass( |
|
317 | launcher = klass( | |
307 | work_dir=u'.', config=self.config, log=self.log, |
|
318 | work_dir=u'.', config=self.config, log=self.log, | |
308 | profile_dir=self.profile_dir.location, cluster_id=self.cluster_id, |
|
319 | profile_dir=self.profile_dir.location, cluster_id=self.cluster_id, | |
309 | ) |
|
320 | ) | |
310 | return launcher |
|
321 | return launcher | |
311 |
|
322 | |||
312 | def start_engines(self): |
|
323 | def start_engines(self): | |
313 | self.log.info("Starting %i engines"%self.n) |
|
324 | self.log.info("Starting %i engines"%self.n) | |
314 | self.engine_launcher.start(self.n) |
|
325 | self.engine_launcher.start(self.n) | |
315 |
|
326 | |||
316 | def stop_engines(self): |
|
327 | def stop_engines(self): | |
317 | self.log.info("Stopping Engines...") |
|
328 | self.log.info("Stopping Engines...") | |
318 | if self.engine_launcher.running: |
|
329 | if self.engine_launcher.running: | |
319 | d = self.engine_launcher.stop() |
|
330 | d = self.engine_launcher.stop() | |
320 | return d |
|
331 | return d | |
321 | else: |
|
332 | else: | |
322 | return None |
|
333 | return None | |
323 |
|
334 | |||
324 | def stop_launchers(self, r=None): |
|
335 | def stop_launchers(self, r=None): | |
325 | if not self._stopping: |
|
336 | if not self._stopping: | |
326 | self._stopping = True |
|
337 | self._stopping = True | |
327 | self.log.error("IPython cluster: stopping") |
|
338 | self.log.error("IPython cluster: stopping") | |
328 | self.stop_engines() |
|
339 | self.stop_engines() | |
329 | # Wait a few seconds to let things shut down. |
|
340 | # Wait a few seconds to let things shut down. | |
330 | dc = ioloop.DelayedCallback(self.loop.stop, 4000, self.loop) |
|
341 | dc = ioloop.DelayedCallback(self.loop.stop, 4000, self.loop) | |
331 | dc.start() |
|
342 | dc.start() | |
332 |
|
343 | |||
333 | def sigint_handler(self, signum, frame): |
|
344 | def sigint_handler(self, signum, frame): | |
334 | self.log.debug("SIGINT received, stopping launchers...") |
|
345 | self.log.debug("SIGINT received, stopping launchers...") | |
335 | self.stop_launchers() |
|
346 | self.stop_launchers() | |
336 |
|
347 | |||
337 | def start_logging(self): |
|
348 | def start_logging(self): | |
338 | # Remove old log files of the controller and engine |
|
349 | # Remove old log files of the controller and engine | |
339 | if self.clean_logs: |
|
350 | if self.clean_logs: | |
340 | log_dir = self.profile_dir.log_dir |
|
351 | log_dir = self.profile_dir.log_dir | |
341 | for f in os.listdir(log_dir): |
|
352 | for f in os.listdir(log_dir): | |
342 | if re.match(r'ip(engine|controller)z-\d+\.(log|err|out)',f): |
|
353 | if re.match(r'ip(engine|controller)z-\d+\.(log|err|out)',f): | |
343 | os.remove(os.path.join(log_dir, f)) |
|
354 | os.remove(os.path.join(log_dir, f)) | |
344 | # This will remove old log files for ipcluster itself |
|
355 | # This will remove old log files for ipcluster itself | |
345 | # super(IPBaseParallelApplication, self).start_logging() |
|
356 | # super(IPBaseParallelApplication, self).start_logging() | |
346 |
|
357 | |||
347 | def start(self): |
|
358 | def start(self): | |
348 | """Start the app for the engines subcommand.""" |
|
359 | """Start the app for the engines subcommand.""" | |
349 | self.log.info("IPython cluster: started") |
|
360 | self.log.info("IPython cluster: started") | |
350 | # First see if the cluster is already running |
|
361 | # First see if the cluster is already running | |
351 |
|
362 | |||
352 | # Now log and daemonize |
|
363 | # Now log and daemonize | |
353 | self.log.info( |
|
364 | self.log.info( | |
354 | 'Starting engines with [daemon=%r]' % self.daemonize |
|
365 | 'Starting engines with [daemon=%r]' % self.daemonize | |
355 | ) |
|
366 | ) | |
356 | # TODO: Get daemonize working on Windows or as a Windows Server. |
|
367 | # TODO: Get daemonize working on Windows or as a Windows Server. | |
357 | if self.daemonize: |
|
368 | if self.daemonize: | |
358 | if os.name=='posix': |
|
369 | if os.name=='posix': | |
359 | daemonize() |
|
370 | daemonize() | |
360 |
|
371 | |||
361 | dc = ioloop.DelayedCallback(self.start_engines, 0, self.loop) |
|
372 | dc = ioloop.DelayedCallback(self.start_engines, 0, self.loop) | |
362 | dc.start() |
|
373 | dc.start() | |
363 | # Now write the new pid file AFTER our new forked pid is active. |
|
374 | # Now write the new pid file AFTER our new forked pid is active. | |
364 | # self.write_pid_file() |
|
375 | # self.write_pid_file() | |
365 | try: |
|
376 | try: | |
366 | self.loop.start() |
|
377 | self.loop.start() | |
367 | except KeyboardInterrupt: |
|
378 | except KeyboardInterrupt: | |
368 | pass |
|
379 | pass | |
369 | except zmq.ZMQError as e: |
|
380 | except zmq.ZMQError as e: | |
370 | if e.errno == errno.EINTR: |
|
381 | if e.errno == errno.EINTR: | |
371 | pass |
|
382 | pass | |
372 | else: |
|
383 | else: | |
373 | raise |
|
384 | raise | |
374 |
|
385 | |||
375 | start_aliases = {} |
|
386 | start_aliases = {} | |
376 | start_aliases.update(engine_aliases) |
|
387 | start_aliases.update(engine_aliases) | |
377 | start_aliases.update(dict( |
|
388 | start_aliases.update(dict( | |
378 | delay='IPClusterStart.delay', |
|
389 | delay='IPClusterStart.delay', | |
379 | controller = 'IPClusterStart.controller_launcher_class', |
|
390 | controller = 'IPClusterStart.controller_launcher_class', | |
380 | )) |
|
391 | )) | |
381 | start_aliases['clean-logs'] = 'IPClusterStart.clean_logs' |
|
392 | start_aliases['clean-logs'] = 'IPClusterStart.clean_logs' | |
382 |
|
393 | |||
383 | class IPClusterStart(IPClusterEngines): |
|
394 | class IPClusterStart(IPClusterEngines): | |
384 |
|
395 | |||
385 | name = u'ipcluster' |
|
396 | name = u'ipcluster' | |
386 | description = start_help |
|
397 | description = start_help | |
387 | examples = _start_examples |
|
398 | examples = _start_examples | |
388 | default_log_level = logging.INFO |
|
399 | default_log_level = logging.INFO | |
389 | auto_create = Bool(True, config=True, |
|
400 | auto_create = Bool(True, config=True, | |
390 | help="whether to create the profile_dir if it doesn't exist") |
|
401 | help="whether to create the profile_dir if it doesn't exist") | |
391 | classes = List() |
|
402 | classes = List() | |
392 | def _classes_default(self,): |
|
403 | def _classes_default(self,): | |
393 | from IPython.parallel.apps import launcher |
|
404 | from IPython.parallel.apps import launcher | |
394 | return [ProfileDir] + [IPClusterEngines] + launcher.all_launchers |
|
405 | return [ProfileDir] + [IPClusterEngines] + launcher.all_launchers | |
395 |
|
406 | |||
396 | clean_logs = Bool(True, config=True, |
|
407 | clean_logs = Bool(True, config=True, | |
397 | help="whether to cleanup old logs before starting") |
|
408 | help="whether to cleanup old logs before starting") | |
398 |
|
409 | |||
399 | delay = CFloat(1., config=True, |
|
410 | delay = CFloat(1., config=True, | |
400 | help="delay (in s) between starting the controller and the engines") |
|
411 | help="delay (in s) between starting the controller and the engines") | |
401 |
|
412 | |||
402 | controller_launcher = Any(config=True, help="Deprecated, use controller_launcher_class") |
|
413 | controller_launcher = Any(config=True, help="Deprecated, use controller_launcher_class") | |
403 | def _controller_launcher_changed(self, name, old, new): |
|
414 | def _controller_launcher_changed(self, name, old, new): | |
404 | if isinstance(new, basestring): |
|
415 | if isinstance(new, basestring): | |
405 | # old 0.11-style config |
|
416 | # old 0.11-style config | |
406 | self.log.warn("WARNING: %s.controller_launcher is deprecated as of 0.12," |
|
417 | self.log.warn("WARNING: %s.controller_launcher is deprecated as of 0.12," | |
407 | " use controller_launcher_class" % self.__class__.__name__) |
|
418 | " use controller_launcher_class" % self.__class__.__name__) | |
408 | self.controller_launcher_class = new |
|
419 | self.controller_launcher_class = new | |
409 | controller_launcher_class = DottedObjectName('LocalControllerLauncher', |
|
420 | controller_launcher_class = DottedObjectName('LocalControllerLauncher', | |
410 | config=True, |
|
421 | config=True, | |
411 | help="""The class for launching a Controller. Change this value if you want |
|
422 | help="""The class for launching a Controller. Change this value if you want | |
412 | your controller to also be launched by a batch system, such as PBS,SGE,MPIExec,etc. |
|
423 | your controller to also be launched by a batch system, such as PBS,SGE,MPIExec,etc. | |
413 |
|
424 | |||
414 | Each launcher class has its own set of configuration options, for making sure |
|
425 | Each launcher class has its own set of configuration options, for making sure | |
415 | it will work in your environment. |
|
426 | it will work in your environment. | |
416 |
|
427 | |||
417 | Examples include: |
|
428 | Examples include: | |
418 |
|
429 | |||
419 | LocalControllerLauncher : start engines locally as subprocesses |
|
430 | LocalControllerLauncher : start engines locally as subprocesses | |
420 | MPIExecControllerLauncher : use mpiexec to launch engines in an MPI universe |
|
431 | MPIExecControllerLauncher : use mpiexec to launch engines in an MPI universe | |
421 | PBSControllerLauncher : use PBS (qsub) to submit engines to a batch queue |
|
432 | PBSControllerLauncher : use PBS (qsub) to submit engines to a batch queue | |
422 | SGEControllerLauncher : use SGE (qsub) to submit engines to a batch queue |
|
433 | SGEControllerLauncher : use SGE (qsub) to submit engines to a batch queue | |
|
434 | LSFControllerLauncher : use LSF (bsub) to submit engines to a batch queue | |||
423 | SSHControllerLauncher : use SSH to start the controller |
|
435 | SSHControllerLauncher : use SSH to start the controller | |
424 | WindowsHPCControllerLauncher : use Windows HPC |
|
436 | WindowsHPCControllerLauncher : use Windows HPC | |
|
437 | ||||
|
438 | If you are using one of IPython's builtin launchers, you can specify just the | |||
|
439 | prefix, e.g: | |||
|
440 | ||||
|
441 | c.IPClusterStart.controller_launcher_class = 'SSH' | |||
|
442 | ||||
|
443 | or: | |||
|
444 | ||||
|
445 | ipcluster start --controller 'MPIExec' | |||
|
446 | ||||
425 | """ |
|
447 | """ | |
426 | ) |
|
448 | ) | |
427 | reset = Bool(False, config=True, |
|
449 | reset = Bool(False, config=True, | |
428 | help="Whether to reset config files as part of '--create'." |
|
450 | help="Whether to reset config files as part of '--create'." | |
429 | ) |
|
451 | ) | |
430 |
|
452 | |||
431 | # flags = Dict(flags) |
|
453 | # flags = Dict(flags) | |
432 | aliases = Dict(start_aliases) |
|
454 | aliases = Dict(start_aliases) | |
433 |
|
455 | |||
434 | def init_launchers(self): |
|
456 | def init_launchers(self): | |
435 | self.controller_launcher = self.build_launcher(self.controller_launcher_class, 'Controller') |
|
457 | self.controller_launcher = self.build_launcher(self.controller_launcher_class, 'Controller') | |
436 | self.engine_launcher = self.build_launcher(self.engine_launcher_class, 'EngineSet') |
|
458 | self.engine_launcher = self.build_launcher(self.engine_launcher_class, 'EngineSet') | |
437 | self.controller_launcher.on_stop(self.stop_launchers) |
|
459 | self.controller_launcher.on_stop(self.stop_launchers) | |
438 |
|
460 | |||
439 | def start_controller(self): |
|
461 | def start_controller(self): | |
440 | self.controller_launcher.start() |
|
462 | self.controller_launcher.start() | |
441 |
|
463 | |||
442 | def stop_controller(self): |
|
464 | def stop_controller(self): | |
443 | # self.log.info("In stop_controller") |
|
465 | # self.log.info("In stop_controller") | |
444 | if self.controller_launcher and self.controller_launcher.running: |
|
466 | if self.controller_launcher and self.controller_launcher.running: | |
445 | return self.controller_launcher.stop() |
|
467 | return self.controller_launcher.stop() | |
446 |
|
468 | |||
447 | def stop_launchers(self, r=None): |
|
469 | def stop_launchers(self, r=None): | |
448 | if not self._stopping: |
|
470 | if not self._stopping: | |
449 | self.stop_controller() |
|
471 | self.stop_controller() | |
450 | super(IPClusterStart, self).stop_launchers() |
|
472 | super(IPClusterStart, self).stop_launchers() | |
451 |
|
473 | |||
452 | def start(self): |
|
474 | def start(self): | |
453 | """Start the app for the start subcommand.""" |
|
475 | """Start the app for the start subcommand.""" | |
454 | # First see if the cluster is already running |
|
476 | # First see if the cluster is already running | |
455 | try: |
|
477 | try: | |
456 | pid = self.get_pid_from_file() |
|
478 | pid = self.get_pid_from_file() | |
457 | except PIDFileError: |
|
479 | except PIDFileError: | |
458 | pass |
|
480 | pass | |
459 | else: |
|
481 | else: | |
460 | if self.check_pid(pid): |
|
482 | if self.check_pid(pid): | |
461 | self.log.critical( |
|
483 | self.log.critical( | |
462 | 'Cluster is already running with [pid=%s]. ' |
|
484 | 'Cluster is already running with [pid=%s]. ' | |
463 | 'use "ipcluster stop" to stop the cluster.' % pid |
|
485 | 'use "ipcluster stop" to stop the cluster.' % pid | |
464 | ) |
|
486 | ) | |
465 | # Here I exit with a unusual exit status that other processes |
|
487 | # Here I exit with a unusual exit status that other processes | |
466 | # can watch for to learn how I existed. |
|
488 | # can watch for to learn how I existed. | |
467 | self.exit(ALREADY_STARTED) |
|
489 | self.exit(ALREADY_STARTED) | |
468 | else: |
|
490 | else: | |
469 | self.remove_pid_file() |
|
491 | self.remove_pid_file() | |
470 |
|
492 | |||
471 |
|
493 | |||
472 | # Now log and daemonize |
|
494 | # Now log and daemonize | |
473 | self.log.info( |
|
495 | self.log.info( | |
474 | 'Starting ipcluster with [daemon=%r]' % self.daemonize |
|
496 | 'Starting ipcluster with [daemon=%r]' % self.daemonize | |
475 | ) |
|
497 | ) | |
476 | # TODO: Get daemonize working on Windows or as a Windows Server. |
|
498 | # TODO: Get daemonize working on Windows or as a Windows Server. | |
477 | if self.daemonize: |
|
499 | if self.daemonize: | |
478 | if os.name=='posix': |
|
500 | if os.name=='posix': | |
479 | daemonize() |
|
501 | daemonize() | |
480 |
|
502 | |||
481 | dc = ioloop.DelayedCallback(self.start_controller, 0, self.loop) |
|
503 | dc = ioloop.DelayedCallback(self.start_controller, 0, self.loop) | |
482 | dc.start() |
|
504 | dc.start() | |
483 | dc = ioloop.DelayedCallback(self.start_engines, 1000*self.delay, self.loop) |
|
505 | dc = ioloop.DelayedCallback(self.start_engines, 1000*self.delay, self.loop) | |
484 | dc.start() |
|
506 | dc.start() | |
485 | # Now write the new pid file AFTER our new forked pid is active. |
|
507 | # Now write the new pid file AFTER our new forked pid is active. | |
486 | self.write_pid_file() |
|
508 | self.write_pid_file() | |
487 | try: |
|
509 | try: | |
488 | self.loop.start() |
|
510 | self.loop.start() | |
489 | except KeyboardInterrupt: |
|
511 | except KeyboardInterrupt: | |
490 | pass |
|
512 | pass | |
491 | except zmq.ZMQError as e: |
|
513 | except zmq.ZMQError as e: | |
492 | if e.errno == errno.EINTR: |
|
514 | if e.errno == errno.EINTR: | |
493 | pass |
|
515 | pass | |
494 | else: |
|
516 | else: | |
495 | raise |
|
517 | raise | |
496 | finally: |
|
518 | finally: | |
497 | self.remove_pid_file() |
|
519 | self.remove_pid_file() | |
498 |
|
520 | |||
499 | base='IPython.parallel.apps.ipclusterapp.IPCluster' |
|
521 | base='IPython.parallel.apps.ipclusterapp.IPCluster' | |
500 |
|
522 | |||
501 | class IPClusterApp(Application): |
|
523 | class IPClusterApp(Application): | |
502 | name = u'ipcluster' |
|
524 | name = u'ipcluster' | |
503 | description = _description |
|
525 | description = _description | |
504 | examples = _main_examples |
|
526 | examples = _main_examples | |
505 |
|
527 | |||
506 | subcommands = { |
|
528 | subcommands = { | |
507 | 'start' : (base+'Start', start_help), |
|
529 | 'start' : (base+'Start', start_help), | |
508 | 'stop' : (base+'Stop', stop_help), |
|
530 | 'stop' : (base+'Stop', stop_help), | |
509 | 'engines' : (base+'Engines', engines_help), |
|
531 | 'engines' : (base+'Engines', engines_help), | |
510 | } |
|
532 | } | |
511 |
|
533 | |||
512 | # no aliases or flags for parent App |
|
534 | # no aliases or flags for parent App | |
513 | aliases = Dict() |
|
535 | aliases = Dict() | |
514 | flags = Dict() |
|
536 | flags = Dict() | |
515 |
|
537 | |||
516 | def start(self): |
|
538 | def start(self): | |
517 | if self.subapp is None: |
|
539 | if self.subapp is None: | |
518 | print "No subcommand specified. Must specify one of: %s"%(self.subcommands.keys()) |
|
540 | print "No subcommand specified. Must specify one of: %s"%(self.subcommands.keys()) | |
519 |
|
541 | |||
520 | self.print_description() |
|
542 | self.print_description() | |
521 | self.print_subcommands() |
|
543 | self.print_subcommands() | |
522 | self.exit(1) |
|
544 | self.exit(1) | |
523 | else: |
|
545 | else: | |
524 | return self.subapp.start() |
|
546 | return self.subapp.start() | |
525 |
|
547 | |||
526 | def launch_new_instance(): |
|
548 | def launch_new_instance(): | |
527 | """Create and run the IPython cluster.""" |
|
549 | """Create and run the IPython cluster.""" | |
528 | app = IPClusterApp.instance() |
|
550 | app = IPClusterApp.instance() | |
529 | app.initialize() |
|
551 | app.initialize() | |
530 | app.start() |
|
552 | app.start() | |
531 |
|
553 | |||
532 |
|
554 | |||
533 | if __name__ == '__main__': |
|
555 | if __name__ == '__main__': | |
534 | launch_new_instance() |
|
556 | launch_new_instance() | |
535 |
|
557 |
@@ -1,734 +1,761 b'' | |||||
1 | .. _parallel_process: |
|
1 | .. _parallel_process: | |
2 |
|
2 | |||
3 | =========================================== |
|
3 | =========================================== | |
4 | Starting the IPython controller and engines |
|
4 | Starting the IPython controller and engines | |
5 | =========================================== |
|
5 | =========================================== | |
6 |
|
6 | |||
7 | To use IPython for parallel computing, you need to start one instance of |
|
7 | To use IPython for parallel computing, you need to start one instance of | |
8 | the controller and one or more instances of the engine. The controller |
|
8 | the controller and one or more instances of the engine. The controller | |
9 | and each engine can run on different machines or on the same machine. |
|
9 | and each engine can run on different machines or on the same machine. | |
10 | Because of this, there are many different possibilities. |
|
10 | Because of this, there are many different possibilities. | |
11 |
|
11 | |||
12 | Broadly speaking, there are two ways of going about starting a controller and engines: |
|
12 | Broadly speaking, there are two ways of going about starting a controller and engines: | |
13 |
|
13 | |||
14 | * In an automated manner using the :command:`ipcluster` command. |
|
14 | * In an automated manner using the :command:`ipcluster` command. | |
15 | * In a more manual way using the :command:`ipcontroller` and |
|
15 | * In a more manual way using the :command:`ipcontroller` and | |
16 | :command:`ipengine` commands. |
|
16 | :command:`ipengine` commands. | |
17 |
|
17 | |||
18 | This document describes both of these methods. We recommend that new users |
|
18 | This document describes both of these methods. We recommend that new users | |
19 | start with the :command:`ipcluster` command as it simplifies many common usage |
|
19 | start with the :command:`ipcluster` command as it simplifies many common usage | |
20 | cases. |
|
20 | cases. | |
21 |
|
21 | |||
22 | General considerations |
|
22 | General considerations | |
23 | ====================== |
|
23 | ====================== | |
24 |
|
24 | |||
25 | Before delving into the details about how you can start a controller and |
|
25 | Before delving into the details about how you can start a controller and | |
26 | engines using the various methods, we outline some of the general issues that |
|
26 | engines using the various methods, we outline some of the general issues that | |
27 | come up when starting the controller and engines. These things come up no |
|
27 | come up when starting the controller and engines. These things come up no | |
28 | matter which method you use to start your IPython cluster. |
|
28 | matter which method you use to start your IPython cluster. | |
29 |
|
29 | |||
30 | If you are running engines on multiple machines, you will likely need to instruct the |
|
30 | If you are running engines on multiple machines, you will likely need to instruct the | |
31 | controller to listen for connections on an external interface. This can be done by specifying |
|
31 | controller to listen for connections on an external interface. This can be done by specifying | |
32 | the ``ip`` argument on the command-line, or the ``HubFactory.ip`` configurable in |
|
32 | the ``ip`` argument on the command-line, or the ``HubFactory.ip`` configurable in | |
33 | :file:`ipcontroller_config.py`. |
|
33 | :file:`ipcontroller_config.py`. | |
34 |
|
34 | |||
35 | If your machines are on a trusted network, you can safely instruct the controller to listen |
|
35 | If your machines are on a trusted network, you can safely instruct the controller to listen | |
36 | on all public interfaces with:: |
|
36 | on all public interfaces with:: | |
37 |
|
37 | |||
38 | $> ipcontroller --ip=* |
|
38 | $> ipcontroller --ip=* | |
39 |
|
39 | |||
40 | Or you can set the same behavior as the default by adding the following line to your :file:`ipcontroller_config.py`: |
|
40 | Or you can set the same behavior as the default by adding the following line to your :file:`ipcontroller_config.py`: | |
41 |
|
41 | |||
42 | .. sourcecode:: python |
|
42 | .. sourcecode:: python | |
43 |
|
43 | |||
44 | c.HubFactory.ip = '*' |
|
44 | c.HubFactory.ip = '*' | |
45 |
|
45 | |||
46 | .. note:: |
|
46 | .. note:: | |
47 |
|
47 | |||
48 | Due to the lack of security in ZeroMQ, the controller will only listen for connections on |
|
48 | Due to the lack of security in ZeroMQ, the controller will only listen for connections on | |
49 | localhost by default. If you see Timeout errors on engines or clients, then the first |
|
49 | localhost by default. If you see Timeout errors on engines or clients, then the first | |
50 | thing you should check is the ip address the controller is listening on, and make sure |
|
50 | thing you should check is the ip address the controller is listening on, and make sure | |
51 | that it is visible from the timing out machine. |
|
51 | that it is visible from the timing out machine. | |
52 |
|
52 | |||
53 | .. seealso:: |
|
53 | .. seealso:: | |
54 |
|
54 | |||
55 | Our `notes <parallel_security>`_ on security in the new parallel computing code. |
|
55 | Our `notes <parallel_security>`_ on security in the new parallel computing code. | |
56 |
|
56 | |||
57 | Let's say that you want to start the controller on ``host0`` and engines on |
|
57 | Let's say that you want to start the controller on ``host0`` and engines on | |
58 | hosts ``host1``-``hostn``. The following steps are then required: |
|
58 | hosts ``host1``-``hostn``. The following steps are then required: | |
59 |
|
59 | |||
60 | 1. Start the controller on ``host0`` by running :command:`ipcontroller` on |
|
60 | 1. Start the controller on ``host0`` by running :command:`ipcontroller` on | |
61 | ``host0``. The controller must be instructed to listen on an interface visible |
|
61 | ``host0``. The controller must be instructed to listen on an interface visible | |
62 | to the engine machines, via the ``ip`` command-line argument or ``HubFactory.ip`` |
|
62 | to the engine machines, via the ``ip`` command-line argument or ``HubFactory.ip`` | |
63 | in :file:`ipcontroller_config.py`. |
|
63 | in :file:`ipcontroller_config.py`. | |
64 | 2. Move the JSON file (:file:`ipcontroller-engine.json`) created by the |
|
64 | 2. Move the JSON file (:file:`ipcontroller-engine.json`) created by the | |
65 | controller from ``host0`` to hosts ``host1``-``hostn``. |
|
65 | controller from ``host0`` to hosts ``host1``-``hostn``. | |
66 | 3. Start the engines on hosts ``host1``-``hostn`` by running |
|
66 | 3. Start the engines on hosts ``host1``-``hostn`` by running | |
67 | :command:`ipengine`. This command has to be told where the JSON file |
|
67 | :command:`ipengine`. This command has to be told where the JSON file | |
68 | (:file:`ipcontroller-engine.json`) is located. |
|
68 | (:file:`ipcontroller-engine.json`) is located. | |
69 |
|
69 | |||
70 | At this point, the controller and engines will be connected. By default, the JSON files |
|
70 | At this point, the controller and engines will be connected. By default, the JSON files | |
71 | created by the controller are put into the :file:`~/.ipython/profile_default/security` |
|
71 | created by the controller are put into the :file:`~/.ipython/profile_default/security` | |
72 | directory. If the engines share a filesystem with the controller, step 2 can be skipped as |
|
72 | directory. If the engines share a filesystem with the controller, step 2 can be skipped as | |
73 | the engines will automatically look at that location. |
|
73 | the engines will automatically look at that location. | |
74 |
|
74 | |||
75 | The final step required to actually use the running controller from a client is to move |
|
75 | The final step required to actually use the running controller from a client is to move | |
76 | the JSON file :file:`ipcontroller-client.json` from ``host0`` to any host where clients |
|
76 | the JSON file :file:`ipcontroller-client.json` from ``host0`` to any host where clients | |
77 | will be run. If these file are put into the :file:`~/.ipython/profile_default/security` |
|
77 | will be run. If these file are put into the :file:`~/.ipython/profile_default/security` | |
78 | directory of the client's host, they will be found automatically. Otherwise, the full path |
|
78 | directory of the client's host, they will be found automatically. Otherwise, the full path | |
79 | to them has to be passed to the client's constructor. |
|
79 | to them has to be passed to the client's constructor. | |
80 |
|
80 | |||
81 | Using :command:`ipcluster` |
|
81 | Using :command:`ipcluster` | |
82 | =========================== |
|
82 | =========================== | |
83 |
|
83 | |||
84 | The :command:`ipcluster` command provides a simple way of starting a |
|
84 | The :command:`ipcluster` command provides a simple way of starting a | |
85 | controller and engines in the following situations: |
|
85 | controller and engines in the following situations: | |
86 |
|
86 | |||
87 | 1. When the controller and engines are all run on localhost. This is useful |
|
87 | 1. When the controller and engines are all run on localhost. This is useful | |
88 | for testing or running on a multicore computer. |
|
88 | for testing or running on a multicore computer. | |
89 | 2. When engines are started using the :command:`mpiexec` command that comes |
|
89 | 2. When engines are started using the :command:`mpiexec` command that comes | |
90 | with most MPI [MPI]_ implementations |
|
90 | with most MPI [MPI]_ implementations | |
91 | 3. When engines are started using the PBS [PBS]_ batch system |
|
91 | 3. When engines are started using the PBS [PBS]_ batch system | |
92 | (or other `qsub` systems, such as SGE). |
|
92 | (or other `qsub` systems, such as SGE). | |
93 | 4. When the controller is started on localhost and the engines are started on |
|
93 | 4. When the controller is started on localhost and the engines are started on | |
94 | remote nodes using :command:`ssh`. |
|
94 | remote nodes using :command:`ssh`. | |
95 | 5. When engines are started using the Windows HPC Server batch system. |
|
95 | 5. When engines are started using the Windows HPC Server batch system. | |
96 |
|
96 | |||
97 | .. note:: |
|
97 | .. note:: | |
98 |
|
98 | |||
99 | Currently :command:`ipcluster` requires that the |
|
99 | Currently :command:`ipcluster` requires that the | |
100 | :file:`~/.ipython/profile_<name>/security` directory live on a shared filesystem that is |
|
100 | :file:`~/.ipython/profile_<name>/security` directory live on a shared filesystem that is | |
101 | seen by both the controller and engines. If you don't have a shared file |
|
101 | seen by both the controller and engines. If you don't have a shared file | |
102 | system you will need to use :command:`ipcontroller` and |
|
102 | system you will need to use :command:`ipcontroller` and | |
103 | :command:`ipengine` directly. |
|
103 | :command:`ipengine` directly. | |
104 |
|
104 | |||
105 | Under the hood, :command:`ipcluster` just uses :command:`ipcontroller` |
|
105 | Under the hood, :command:`ipcluster` just uses :command:`ipcontroller` | |
106 | and :command:`ipengine` to perform the steps described above. |
|
106 | and :command:`ipengine` to perform the steps described above. | |
107 |
|
107 | |||
108 | The simplest way to use ipcluster requires no configuration, and will |
|
108 | The simplest way to use ipcluster requires no configuration, and will | |
109 | launch a controller and a number of engines on the local machine. For instance, |
|
109 | launch a controller and a number of engines on the local machine. For instance, | |
110 | to start one controller and 4 engines on localhost, just do:: |
|
110 | to start one controller and 4 engines on localhost, just do:: | |
111 |
|
111 | |||
112 | $ ipcluster start -n 4 |
|
112 | $ ipcluster start -n 4 | |
113 |
|
113 | |||
114 | To see other command line options, do:: |
|
114 | To see other command line options, do:: | |
115 |
|
115 | |||
116 | $ ipcluster -h |
|
116 | $ ipcluster -h | |
117 |
|
117 | |||
118 |
|
118 | |||
119 | Configuring an IPython cluster |
|
119 | Configuring an IPython cluster | |
120 | ============================== |
|
120 | ============================== | |
121 |
|
121 | |||
122 | Cluster configurations are stored as `profiles`. You can create a new profile with:: |
|
122 | Cluster configurations are stored as `profiles`. You can create a new profile with:: | |
123 |
|
123 | |||
124 | $ ipython profile create --parallel --profile=myprofile |
|
124 | $ ipython profile create --parallel --profile=myprofile | |
125 |
|
125 | |||
126 | This will create the directory :file:`IPYTHONDIR/profile_myprofile`, and populate it |
|
126 | This will create the directory :file:`IPYTHONDIR/profile_myprofile`, and populate it | |
127 | with the default configuration files for the three IPython cluster commands. Once |
|
127 | with the default configuration files for the three IPython cluster commands. Once | |
128 | you edit those files, you can continue to call ipcluster/ipcontroller/ipengine |
|
128 | you edit those files, you can continue to call ipcluster/ipcontroller/ipengine | |
129 | with no arguments beyond ``profile=myprofile``, and any configuration will be maintained. |
|
129 | with no arguments beyond ``profile=myprofile``, and any configuration will be maintained. | |
130 |
|
130 | |||
131 | There is no limit to the number of profiles you can have, so you can maintain a profile for each |
|
131 | There is no limit to the number of profiles you can have, so you can maintain a profile for each | |
132 | of your common use cases. The default profile will be used whenever the |
|
132 | of your common use cases. The default profile will be used whenever the | |
133 | profile argument is not specified, so edit :file:`IPYTHONDIR/profile_default/*_config.py` to |
|
133 | profile argument is not specified, so edit :file:`IPYTHONDIR/profile_default/*_config.py` to | |
134 | represent your most common use case. |
|
134 | represent your most common use case. | |
135 |
|
135 | |||
136 | The configuration files are loaded with commented-out settings and explanations, |
|
136 | The configuration files are loaded with commented-out settings and explanations, | |
137 | which should cover most of the available possibilities. |
|
137 | which should cover most of the available possibilities. | |
138 |
|
138 | |||
139 | Using various batch systems with :command:`ipcluster` |
|
139 | Using various batch systems with :command:`ipcluster` | |
140 | ----------------------------------------------------- |
|
140 | ----------------------------------------------------- | |
141 |
|
141 | |||
142 | :command:`ipcluster` has a notion of Launchers that can start controllers |
|
142 | :command:`ipcluster` has a notion of Launchers that can start controllers | |
143 | and engines with various remote execution schemes. Currently supported |
|
143 | and engines with various remote execution schemes. Currently supported | |
144 | models include :command:`ssh`, :command:`mpiexec`, PBS-style (Torque, SGE), |
|
144 | models include :command:`ssh`, :command:`mpiexec`, PBS-style (Torque, SGE, LSF), | |
145 | and Windows HPC Server. |
|
145 | and Windows HPC Server. | |
146 |
|
146 | |||
|
147 | In general, these are configured by the :attr:`IPClusterEngines.engine_set_launcher_class`, | |||
|
148 | and :attr:`IPClusterStart.controller_launcher_class` configurables, which can be the | |||
|
149 | fully specified object name (e.g. ``'IPython.parallel.apps.launcher.LocalControllerLauncher'``), | |||
|
150 | but if you are using IPython's builtin launchers, you can specify just the class name, | |||
|
151 | or even just the prefix e.g: | |||
|
152 | ||||
|
153 | .. sourcecode:: python | |||
|
154 | ||||
|
155 | c.IPClusterEngines.engine_launcher_class = 'SSH' | |||
|
156 | # equivalent to | |||
|
157 | c.IPClusterEngines.engine_launcher_class = 'SSHEngineSetLauncher' | |||
|
158 | # both of which expand to | |||
|
159 | c.IPClusterEngines.engine_launcher_class = 'IPython.parallel.apps.launcher.SSHEngineSetLauncher' | |||
|
160 | ||||
|
161 | The shortest form being of particular use on the command line, where all you need to do to | |||
|
162 | get an IPython cluster running with engines started with MPI is: | |||
|
163 | ||||
|
164 | .. sourcecode:: bash | |||
|
165 | ||||
|
166 | $> ipcluster start --engines=MPIExec | |||
|
167 | ||||
|
168 | Assuming that the default MPI config is sufficient. | |||
|
169 | ||||
|
170 | .. note:: | |||
|
171 | ||||
|
172 | shortcuts for builtin launcher names were added in 0.12, as was the ``_class`` suffix | |||
|
173 | on the configurable names. If you use the old 0.11 names (e.g. ``engine_set_launcher``), | |||
|
174 | they will still work, but you will get a deprecation warning that the name has changed. | |||
|
175 | ||||
|
176 | ||||
147 | .. note:: |
|
177 | .. note:: | |
148 |
|
178 | |||
149 | The Launchers and configuration are designed in such a way that advanced |
|
179 | The Launchers and configuration are designed in such a way that advanced | |
150 | users can subclass and configure them to fit their own system that we |
|
180 | users can subclass and configure them to fit their own system that we | |
151 | have not yet supported (such as Condor) |
|
181 | have not yet supported (such as Condor) | |
152 |
|
182 | |||
153 | Using :command:`ipcluster` in mpiexec/mpirun mode |
|
183 | Using :command:`ipcluster` in mpiexec/mpirun mode | |
154 | -------------------------------------------------- |
|
184 | -------------------------------------------------- | |
155 |
|
185 | |||
156 |
|
186 | |||
157 | The mpiexec/mpirun mode is useful if you: |
|
187 | The mpiexec/mpirun mode is useful if you: | |
158 |
|
188 | |||
159 | 1. Have MPI installed. |
|
189 | 1. Have MPI installed. | |
160 | 2. Your systems are configured to use the :command:`mpiexec` or |
|
190 | 2. Your systems are configured to use the :command:`mpiexec` or | |
161 | :command:`mpirun` commands to start MPI processes. |
|
191 | :command:`mpirun` commands to start MPI processes. | |
162 |
|
192 | |||
163 | If these are satisfied, you can create a new profile:: |
|
193 | If these are satisfied, you can create a new profile:: | |
164 |
|
194 | |||
165 | $ ipython profile create --parallel --profile=mpi |
|
195 | $ ipython profile create --parallel --profile=mpi | |
166 |
|
196 | |||
167 | and edit the file :file:`IPYTHONDIR/profile_mpi/ipcluster_config.py`. |
|
197 | and edit the file :file:`IPYTHONDIR/profile_mpi/ipcluster_config.py`. | |
168 |
|
198 | |||
169 | There, instruct ipcluster to use the MPIExec launchers by adding the lines: |
|
199 | There, instruct ipcluster to use the MPIExec launchers by adding the lines: | |
170 |
|
200 | |||
171 | .. sourcecode:: python |
|
201 | .. sourcecode:: python | |
172 |
|
202 | |||
173 |
c.IPClusterEngines.engine_launcher = ' |
|
203 | c.IPClusterEngines.engine_launcher_class = 'MPIExecEngineSetLauncher' | |
174 |
|
204 | |||
175 | If the default MPI configuration is correct, then you can now start your cluster, with:: |
|
205 | If the default MPI configuration is correct, then you can now start your cluster, with:: | |
176 |
|
206 | |||
177 | $ ipcluster start -n 4 --profile=mpi |
|
207 | $ ipcluster start -n 4 --profile=mpi | |
178 |
|
208 | |||
179 | This does the following: |
|
209 | This does the following: | |
180 |
|
210 | |||
181 | 1. Starts the IPython controller on current host. |
|
211 | 1. Starts the IPython controller on current host. | |
182 | 2. Uses :command:`mpiexec` to start 4 engines. |
|
212 | 2. Uses :command:`mpiexec` to start 4 engines. | |
183 |
|
213 | |||
184 | If you have a reason to also start the Controller with mpi, you can specify: |
|
214 | If you have a reason to also start the Controller with mpi, you can specify: | |
185 |
|
215 | |||
186 | .. sourcecode:: python |
|
216 | .. sourcecode:: python | |
187 |
|
217 | |||
188 |
c.IPClusterStart.controller_launcher = ' |
|
218 | c.IPClusterStart.controller_launcher_class = 'MPIExecControllerLauncher' | |
189 |
|
219 | |||
190 | .. note:: |
|
220 | .. note:: | |
191 |
|
221 | |||
192 | The Controller *will not* be in the same MPI universe as the engines, so there is not |
|
222 | The Controller *will not* be in the same MPI universe as the engines, so there is not | |
193 | much reason to do this unless sysadmins demand it. |
|
223 | much reason to do this unless sysadmins demand it. | |
194 |
|
224 | |||
195 | On newer MPI implementations (such as OpenMPI), this will work even if you |
|
225 | On newer MPI implementations (such as OpenMPI), this will work even if you | |
196 | don't make any calls to MPI or call :func:`MPI_Init`. However, older MPI |
|
226 | don't make any calls to MPI or call :func:`MPI_Init`. However, older MPI | |
197 | implementations actually require each process to call :func:`MPI_Init` upon |
|
227 | implementations actually require each process to call :func:`MPI_Init` upon | |
198 | starting. The easiest way of having this done is to install the mpi4py |
|
228 | starting. The easiest way of having this done is to install the mpi4py | |
199 | [mpi4py]_ package and then specify the ``c.MPI.use`` option in :file:`ipengine_config.py`: |
|
229 | [mpi4py]_ package and then specify the ``c.MPI.use`` option in :file:`ipengine_config.py`: | |
200 |
|
230 | |||
201 | .. sourcecode:: python |
|
231 | .. sourcecode:: python | |
202 |
|
232 | |||
203 | c.MPI.use = 'mpi4py' |
|
233 | c.MPI.use = 'mpi4py' | |
204 |
|
234 | |||
205 | Unfortunately, even this won't work for some MPI implementations. If you are |
|
235 | Unfortunately, even this won't work for some MPI implementations. If you are | |
206 | having problems with this, you will likely have to use a custom Python |
|
236 | having problems with this, you will likely have to use a custom Python | |
207 | executable that itself calls :func:`MPI_Init` at the appropriate time. |
|
237 | executable that itself calls :func:`MPI_Init` at the appropriate time. | |
208 | Fortunately, mpi4py comes with such a custom Python executable that is easy to |
|
238 | Fortunately, mpi4py comes with such a custom Python executable that is easy to | |
209 | install and use. However, this custom Python executable approach will not work |
|
239 | install and use. However, this custom Python executable approach will not work | |
210 | with :command:`ipcluster` currently. |
|
240 | with :command:`ipcluster` currently. | |
211 |
|
241 | |||
212 | More details on using MPI with IPython can be found :ref:`here <parallelmpi>`. |
|
242 | More details on using MPI with IPython can be found :ref:`here <parallelmpi>`. | |
213 |
|
243 | |||
214 |
|
244 | |||
215 | Using :command:`ipcluster` in PBS mode |
|
245 | Using :command:`ipcluster` in PBS mode | |
216 | --------------------------------------- |
|
246 | --------------------------------------- | |
217 |
|
247 | |||
218 | The PBS mode uses the Portable Batch System (PBS) to start the engines. |
|
248 | The PBS mode uses the Portable Batch System (PBS) to start the engines. | |
219 |
|
249 | |||
220 | As usual, we will start by creating a fresh profile:: |
|
250 | As usual, we will start by creating a fresh profile:: | |
221 |
|
251 | |||
222 | $ ipython profile create --parallel --profile=pbs |
|
252 | $ ipython profile create --parallel --profile=pbs | |
223 |
|
253 | |||
224 | And in :file:`ipcluster_config.py`, we will select the PBS launchers for the controller |
|
254 | And in :file:`ipcluster_config.py`, we will select the PBS launchers for the controller | |
225 | and engines: |
|
255 | and engines: | |
226 |
|
256 | |||
227 | .. sourcecode:: python |
|
257 | .. sourcecode:: python | |
228 |
|
258 | |||
229 |
c.IPClusterStart.controller_launcher |
|
259 | c.IPClusterStart.controller_launcher_class = 'PBSControllerLauncher' | |
230 | 'IPython.parallel.apps.launcher.PBSControllerLauncher' |
|
260 | c.IPClusterEngines.engine_launcher_class = 'PBSEngineSetLauncher' | |
231 | c.IPClusterEngines.engine_launcher = \ |
|
|||
232 | 'IPython.parallel.apps.launcher.PBSEngineSetLauncher' |
|
|||
233 |
|
261 | |||
234 | .. note:: |
|
262 | .. note:: | |
235 |
|
263 | |||
236 | Note that the configurable is IPClusterEngines for the engine launcher, and |
|
264 | Note that the configurable is IPClusterEngines for the engine launcher, and | |
237 | IPClusterStart for the controller launcher. This is because the start command is a |
|
265 | IPClusterStart for the controller launcher. This is because the start command is a | |
238 | subclass of the engine command, adding a controller launcher. Since it is a subclass, |
|
266 | subclass of the engine command, adding a controller launcher. Since it is a subclass, | |
239 | any configuration made in IPClusterEngines is inherited by IPClusterStart unless it is |
|
267 | any configuration made in IPClusterEngines is inherited by IPClusterStart unless it is | |
240 | overridden. |
|
268 | overridden. | |
241 |
|
269 | |||
242 | IPython does provide simple default batch templates for PBS and SGE, but you may need |
|
270 | IPython does provide simple default batch templates for PBS and SGE, but you may need | |
243 | to specify your own. Here is a sample PBS script template: |
|
271 | to specify your own. Here is a sample PBS script template: | |
244 |
|
272 | |||
245 | .. sourcecode:: bash |
|
273 | .. sourcecode:: bash | |
246 |
|
274 | |||
247 | #PBS -N ipython |
|
275 | #PBS -N ipython | |
248 | #PBS -j oe |
|
276 | #PBS -j oe | |
249 | #PBS -l walltime=00:10:00 |
|
277 | #PBS -l walltime=00:10:00 | |
250 | #PBS -l nodes={n/4}:ppn=4 |
|
278 | #PBS -l nodes={n/4}:ppn=4 | |
251 | #PBS -q {queue} |
|
279 | #PBS -q {queue} | |
252 |
|
280 | |||
253 | cd $PBS_O_WORKDIR |
|
281 | cd $PBS_O_WORKDIR | |
254 | export PATH=$HOME/usr/local/bin |
|
282 | export PATH=$HOME/usr/local/bin | |
255 | export PYTHONPATH=$HOME/usr/local/lib/python2.7/site-packages |
|
283 | export PYTHONPATH=$HOME/usr/local/lib/python2.7/site-packages | |
256 | /usr/local/bin/mpiexec -n {n} ipengine --profile-dir={profile_dir} |
|
284 | /usr/local/bin/mpiexec -n {n} ipengine --profile-dir={profile_dir} | |
257 |
|
285 | |||
258 | There are a few important points about this template: |
|
286 | There are a few important points about this template: | |
259 |
|
287 | |||
260 | 1. This template will be rendered at runtime using IPython's :class:`EvalFormatter`. |
|
288 | 1. This template will be rendered at runtime using IPython's :class:`EvalFormatter`. | |
261 | This is simply a subclass of :class:`string.Formatter` that allows simple expressions |
|
289 | This is simply a subclass of :class:`string.Formatter` that allows simple expressions | |
262 | on keys. |
|
290 | on keys. | |
263 |
|
291 | |||
264 | 2. Instead of putting in the actual number of engines, use the notation |
|
292 | 2. Instead of putting in the actual number of engines, use the notation | |
265 | ``{n}`` to indicate the number of engines to be started. You can also use |
|
293 | ``{n}`` to indicate the number of engines to be started. You can also use | |
266 | expressions like ``{n/4}`` in the template to indicate the number of nodes. |
|
294 | expressions like ``{n/4}`` in the template to indicate the number of nodes. | |
267 | There will always be ``{n}`` and ``{profile_dir}`` variables passed to the formatter. |
|
295 | There will always be ``{n}`` and ``{profile_dir}`` variables passed to the formatter. | |
268 | These allow the batch system to know how many engines, and where the configuration |
|
296 | These allow the batch system to know how many engines, and where the configuration | |
269 | files reside. The same is true for the batch queue, with the template variable |
|
297 | files reside. The same is true for the batch queue, with the template variable | |
270 | ``{queue}``. |
|
298 | ``{queue}``. | |
271 |
|
299 | |||
272 | 3. Any options to :command:`ipengine` can be given in the batch script |
|
300 | 3. Any options to :command:`ipengine` can be given in the batch script | |
273 | template, or in :file:`ipengine_config.py`. |
|
301 | template, or in :file:`ipengine_config.py`. | |
274 |
|
302 | |||
275 | 4. Depending on the configuration of you system, you may have to set |
|
303 | 4. Depending on the configuration of you system, you may have to set | |
276 | environment variables in the script template. |
|
304 | environment variables in the script template. | |
277 |
|
305 | |||
278 | The controller template should be similar, but simpler: |
|
306 | The controller template should be similar, but simpler: | |
279 |
|
307 | |||
280 | .. sourcecode:: bash |
|
308 | .. sourcecode:: bash | |
281 |
|
309 | |||
282 | #PBS -N ipython |
|
310 | #PBS -N ipython | |
283 | #PBS -j oe |
|
311 | #PBS -j oe | |
284 | #PBS -l walltime=00:10:00 |
|
312 | #PBS -l walltime=00:10:00 | |
285 | #PBS -l nodes=1:ppn=4 |
|
313 | #PBS -l nodes=1:ppn=4 | |
286 | #PBS -q {queue} |
|
314 | #PBS -q {queue} | |
287 |
|
315 | |||
288 | cd $PBS_O_WORKDIR |
|
316 | cd $PBS_O_WORKDIR | |
289 | export PATH=$HOME/usr/local/bin |
|
317 | export PATH=$HOME/usr/local/bin | |
290 | export PYTHONPATH=$HOME/usr/local/lib/python2.7/site-packages |
|
318 | export PYTHONPATH=$HOME/usr/local/lib/python2.7/site-packages | |
291 | ipcontroller --profile-dir={profile_dir} |
|
319 | ipcontroller --profile-dir={profile_dir} | |
292 |
|
320 | |||
293 |
|
321 | |||
294 | Once you have created these scripts, save them with names like |
|
322 | Once you have created these scripts, save them with names like | |
295 | :file:`pbs.engine.template`. Now you can load them into the :file:`ipcluster_config` with: |
|
323 | :file:`pbs.engine.template`. Now you can load them into the :file:`ipcluster_config` with: | |
296 |
|
324 | |||
297 | .. sourcecode:: python |
|
325 | .. sourcecode:: python | |
298 |
|
326 | |||
299 | c.PBSEngineSetLauncher.batch_template_file = "pbs.engine.template" |
|
327 | c.PBSEngineSetLauncher.batch_template_file = "pbs.engine.template" | |
300 |
|
328 | |||
301 | c.PBSControllerLauncher.batch_template_file = "pbs.controller.template" |
|
329 | c.PBSControllerLauncher.batch_template_file = "pbs.controller.template" | |
302 |
|
330 | |||
303 |
|
331 | |||
304 | Alternately, you can just define the templates as strings inside :file:`ipcluster_config`. |
|
332 | Alternately, you can just define the templates as strings inside :file:`ipcluster_config`. | |
305 |
|
333 | |||
306 | Whether you are using your own templates or our defaults, the extra configurables available are |
|
334 | Whether you are using your own templates or our defaults, the extra configurables available are | |
307 | the number of engines to launch (``{n}``, and the batch system queue to which the jobs are to be |
|
335 | the number of engines to launch (``{n}``, and the batch system queue to which the jobs are to be | |
308 | submitted (``{queue}``)). These are configurables, and can be specified in |
|
336 | submitted (``{queue}``)). These are configurables, and can be specified in | |
309 | :file:`ipcluster_config`: |
|
337 | :file:`ipcluster_config`: | |
310 |
|
338 | |||
311 | .. sourcecode:: python |
|
339 | .. sourcecode:: python | |
312 |
|
340 | |||
313 | c.PBSLauncher.queue = 'veryshort.q' |
|
341 | c.PBSLauncher.queue = 'veryshort.q' | |
314 | c.IPClusterEngines.n = 64 |
|
342 | c.IPClusterEngines.n = 64 | |
315 |
|
343 | |||
316 | Note that assuming you are running PBS on a multi-node cluster, the Controller's default behavior |
|
344 | Note that assuming you are running PBS on a multi-node cluster, the Controller's default behavior | |
317 | of listening only on localhost is likely too restrictive. In this case, also assuming the |
|
345 | of listening only on localhost is likely too restrictive. In this case, also assuming the | |
318 | nodes are safely behind a firewall, you can simply instruct the Controller to listen for |
|
346 | nodes are safely behind a firewall, you can simply instruct the Controller to listen for | |
319 | connections on all its interfaces, by adding in :file:`ipcontroller_config`: |
|
347 | connections on all its interfaces, by adding in :file:`ipcontroller_config`: | |
320 |
|
348 | |||
321 | .. sourcecode:: python |
|
349 | .. sourcecode:: python | |
322 |
|
350 | |||
323 | c.HubFactory.ip = '*' |
|
351 | c.HubFactory.ip = '*' | |
324 |
|
352 | |||
325 | You can now run the cluster with:: |
|
353 | You can now run the cluster with:: | |
326 |
|
354 | |||
327 | $ ipcluster start --profile=pbs -n 128 |
|
355 | $ ipcluster start --profile=pbs -n 128 | |
328 |
|
356 | |||
329 | Additional configuration options can be found in the PBS section of :file:`ipcluster_config`. |
|
357 | Additional configuration options can be found in the PBS section of :file:`ipcluster_config`. | |
330 |
|
358 | |||
331 | .. note:: |
|
359 | .. note:: | |
332 |
|
360 | |||
333 | Due to the flexibility of configuration, the PBS launchers work with simple changes |
|
361 | Due to the flexibility of configuration, the PBS launchers work with simple changes | |
334 | to the template for other :command:`qsub`-using systems, such as Sun Grid Engine, |
|
362 | to the template for other :command:`qsub`-using systems, such as Sun Grid Engine, | |
335 | and with further configuration in similar batch systems like Condor. |
|
363 | and with further configuration in similar batch systems like Condor. | |
336 |
|
364 | |||
337 |
|
365 | |||
338 | Using :command:`ipcluster` in SSH mode |
|
366 | Using :command:`ipcluster` in SSH mode | |
339 | --------------------------------------- |
|
367 | --------------------------------------- | |
340 |
|
368 | |||
341 |
|
369 | |||
342 | The SSH mode uses :command:`ssh` to execute :command:`ipengine` on remote |
|
370 | The SSH mode uses :command:`ssh` to execute :command:`ipengine` on remote | |
343 | nodes and :command:`ipcontroller` can be run remotely as well, or on localhost. |
|
371 | nodes and :command:`ipcontroller` can be run remotely as well, or on localhost. | |
344 |
|
372 | |||
345 | .. note:: |
|
373 | .. note:: | |
346 |
|
374 | |||
347 | When using this mode it highly recommended that you have set up SSH keys |
|
375 | When using this mode it highly recommended that you have set up SSH keys | |
348 | and are using ssh-agent [SSH]_ for password-less logins. |
|
376 | and are using ssh-agent [SSH]_ for password-less logins. | |
349 |
|
377 | |||
350 | As usual, we start by creating a clean profile:: |
|
378 | As usual, we start by creating a clean profile:: | |
351 |
|
379 | |||
352 | $ ipython profile create --parallel --profile=ssh |
|
380 | $ ipython profile create --parallel --profile=ssh | |
353 |
|
381 | |||
354 | To use this mode, select the SSH launchers in :file:`ipcluster_config.py`: |
|
382 | To use this mode, select the SSH launchers in :file:`ipcluster_config.py`: | |
355 |
|
383 | |||
356 | .. sourcecode:: python |
|
384 | .. sourcecode:: python | |
357 |
|
385 | |||
358 |
c.IPClusterEngines.engine_launcher |
|
386 | c.IPClusterEngines.engine_launcher_class = 'SSHEngineSetLauncher' | |
359 | 'IPython.parallel.apps.launcher.SSHEngineSetLauncher' |
|
|||
360 | # and if the Controller is also to be remote: |
|
387 | # and if the Controller is also to be remote: | |
361 |
c.IPClusterStart.controller_launcher |
|
388 | c.IPClusterStart.controller_launcher_class = 'SSHControllerLauncher' | |
362 | 'IPython.parallel.apps.launcher.SSHControllerLauncher' |
|
389 | ||
363 |
|
390 | |||
364 |
|
391 | |||
365 | The controller's remote location and configuration can be specified: |
|
392 | The controller's remote location and configuration can be specified: | |
366 |
|
393 | |||
367 | .. sourcecode:: python |
|
394 | .. sourcecode:: python | |
368 |
|
395 | |||
369 | # Set the user and hostname for the controller |
|
396 | # Set the user and hostname for the controller | |
370 | # c.SSHControllerLauncher.hostname = 'controller.example.com' |
|
397 | # c.SSHControllerLauncher.hostname = 'controller.example.com' | |
371 | # c.SSHControllerLauncher.user = os.environ.get('USER','username') |
|
398 | # c.SSHControllerLauncher.user = os.environ.get('USER','username') | |
372 |
|
399 | |||
373 | # Set the arguments to be passed to ipcontroller |
|
400 | # Set the arguments to be passed to ipcontroller | |
374 | # note that remotely launched ipcontroller will not get the contents of |
|
401 | # note that remotely launched ipcontroller will not get the contents of | |
375 | # the local ipcontroller_config.py unless it resides on the *remote host* |
|
402 | # the local ipcontroller_config.py unless it resides on the *remote host* | |
376 | # in the location specified by the `profile-dir` argument. |
|
403 | # in the location specified by the `profile-dir` argument. | |
377 | # c.SSHControllerLauncher.program_args = ['--reuse', '--ip=*', '--profile-dir=/path/to/cd'] |
|
404 | # c.SSHControllerLauncher.program_args = ['--reuse', '--ip=*', '--profile-dir=/path/to/cd'] | |
378 |
|
405 | |||
379 | .. note:: |
|
406 | .. note:: | |
380 |
|
407 | |||
381 | SSH mode does not do any file movement, so you will need to distribute configuration |
|
408 | SSH mode does not do any file movement, so you will need to distribute configuration | |
382 | files manually. To aid in this, the `reuse_files` flag defaults to True for ssh-launched |
|
409 | files manually. To aid in this, the `reuse_files` flag defaults to True for ssh-launched | |
383 | Controllers, so you will only need to do this once, unless you override this flag back |
|
410 | Controllers, so you will only need to do this once, unless you override this flag back | |
384 | to False. |
|
411 | to False. | |
385 |
|
412 | |||
386 | Engines are specified in a dictionary, by hostname and the number of engines to be run |
|
413 | Engines are specified in a dictionary, by hostname and the number of engines to be run | |
387 | on that host. |
|
414 | on that host. | |
388 |
|
415 | |||
389 | .. sourcecode:: python |
|
416 | .. sourcecode:: python | |
390 |
|
417 | |||
391 | c.SSHEngineSetLauncher.engines = { 'host1.example.com' : 2, |
|
418 | c.SSHEngineSetLauncher.engines = { 'host1.example.com' : 2, | |
392 | 'host2.example.com' : 5, |
|
419 | 'host2.example.com' : 5, | |
393 | 'host3.example.com' : (1, ['--profile-dir=/home/different/location']), |
|
420 | 'host3.example.com' : (1, ['--profile-dir=/home/different/location']), | |
394 | 'host4.example.com' : 8 } |
|
421 | 'host4.example.com' : 8 } | |
395 |
|
422 | |||
396 | * The `engines` dict, where the keys are the host we want to run engines on and |
|
423 | * The `engines` dict, where the keys are the host we want to run engines on and | |
397 | the value is the number of engines to run on that host. |
|
424 | the value is the number of engines to run on that host. | |
398 | * on host3, the value is a tuple, where the number of engines is first, and the arguments |
|
425 | * on host3, the value is a tuple, where the number of engines is first, and the arguments | |
399 | to be passed to :command:`ipengine` are the second element. |
|
426 | to be passed to :command:`ipengine` are the second element. | |
400 |
|
427 | |||
401 | For engines without explicitly specified arguments, the default arguments are set in |
|
428 | For engines without explicitly specified arguments, the default arguments are set in | |
402 | a single location: |
|
429 | a single location: | |
403 |
|
430 | |||
404 | .. sourcecode:: python |
|
431 | .. sourcecode:: python | |
405 |
|
432 | |||
406 | c.SSHEngineSetLauncher.engine_args = ['--profile-dir=/path/to/profile_ssh'] |
|
433 | c.SSHEngineSetLauncher.engine_args = ['--profile-dir=/path/to/profile_ssh'] | |
407 |
|
434 | |||
408 | Current limitations of the SSH mode of :command:`ipcluster` are: |
|
435 | Current limitations of the SSH mode of :command:`ipcluster` are: | |
409 |
|
436 | |||
410 | * Untested on Windows. Would require a working :command:`ssh` on Windows. |
|
437 | * Untested on Windows. Would require a working :command:`ssh` on Windows. | |
411 | Also, we are using shell scripts to setup and execute commands on remote |
|
438 | Also, we are using shell scripts to setup and execute commands on remote | |
412 | hosts. |
|
439 | hosts. | |
413 | * No file movement - This is a regression from 0.10, which moved connection files |
|
440 | * No file movement - This is a regression from 0.10, which moved connection files | |
414 | around with scp. This will be improved, but not before 0.11 release. |
|
441 | around with scp. This will be improved, but not before 0.11 release. | |
415 |
|
442 | |||
416 | Using the :command:`ipcontroller` and :command:`ipengine` commands |
|
443 | Using the :command:`ipcontroller` and :command:`ipengine` commands | |
417 | ==================================================================== |
|
444 | ==================================================================== | |
418 |
|
445 | |||
419 | It is also possible to use the :command:`ipcontroller` and :command:`ipengine` |
|
446 | It is also possible to use the :command:`ipcontroller` and :command:`ipengine` | |
420 | commands to start your controller and engines. This approach gives you full |
|
447 | commands to start your controller and engines. This approach gives you full | |
421 | control over all aspects of the startup process. |
|
448 | control over all aspects of the startup process. | |
422 |
|
449 | |||
423 | Starting the controller and engine on your local machine |
|
450 | Starting the controller and engine on your local machine | |
424 | -------------------------------------------------------- |
|
451 | -------------------------------------------------------- | |
425 |
|
452 | |||
426 | To use :command:`ipcontroller` and :command:`ipengine` to start things on your |
|
453 | To use :command:`ipcontroller` and :command:`ipengine` to start things on your | |
427 | local machine, do the following. |
|
454 | local machine, do the following. | |
428 |
|
455 | |||
429 | First start the controller:: |
|
456 | First start the controller:: | |
430 |
|
457 | |||
431 | $ ipcontroller |
|
458 | $ ipcontroller | |
432 |
|
459 | |||
433 | Next, start however many instances of the engine you want using (repeatedly) |
|
460 | Next, start however many instances of the engine you want using (repeatedly) | |
434 | the command:: |
|
461 | the command:: | |
435 |
|
462 | |||
436 | $ ipengine |
|
463 | $ ipengine | |
437 |
|
464 | |||
438 | The engines should start and automatically connect to the controller using the |
|
465 | The engines should start and automatically connect to the controller using the | |
439 | JSON files in :file:`~/.ipython/profile_default/security`. You are now ready to use the |
|
466 | JSON files in :file:`~/.ipython/profile_default/security`. You are now ready to use the | |
440 | controller and engines from IPython. |
|
467 | controller and engines from IPython. | |
441 |
|
468 | |||
442 | .. warning:: |
|
469 | .. warning:: | |
443 |
|
470 | |||
444 | The order of the above operations may be important. You *must* |
|
471 | The order of the above operations may be important. You *must* | |
445 | start the controller before the engines, unless you are reusing connection |
|
472 | start the controller before the engines, unless you are reusing connection | |
446 | information (via ``--reuse``), in which case ordering is not important. |
|
473 | information (via ``--reuse``), in which case ordering is not important. | |
447 |
|
474 | |||
448 | .. note:: |
|
475 | .. note:: | |
449 |
|
476 | |||
450 | On some platforms (OS X), to put the controller and engine into the |
|
477 | On some platforms (OS X), to put the controller and engine into the | |
451 | background you may need to give these commands in the form ``(ipcontroller |
|
478 | background you may need to give these commands in the form ``(ipcontroller | |
452 | &)`` and ``(ipengine &)`` (with the parentheses) for them to work |
|
479 | &)`` and ``(ipengine &)`` (with the parentheses) for them to work | |
453 | properly. |
|
480 | properly. | |
454 |
|
481 | |||
455 | Starting the controller and engines on different hosts |
|
482 | Starting the controller and engines on different hosts | |
456 | ------------------------------------------------------ |
|
483 | ------------------------------------------------------ | |
457 |
|
484 | |||
458 | When the controller and engines are running on different hosts, things are |
|
485 | When the controller and engines are running on different hosts, things are | |
459 | slightly more complicated, but the underlying ideas are the same: |
|
486 | slightly more complicated, but the underlying ideas are the same: | |
460 |
|
487 | |||
461 | 1. Start the controller on a host using :command:`ipcontroller`. The controller must be |
|
488 | 1. Start the controller on a host using :command:`ipcontroller`. The controller must be | |
462 | instructed to listen on an interface visible to the engine machines, via the ``ip`` |
|
489 | instructed to listen on an interface visible to the engine machines, via the ``ip`` | |
463 | command-line argument or ``HubFactory.ip`` in :file:`ipcontroller_config.py`. |
|
490 | command-line argument or ``HubFactory.ip`` in :file:`ipcontroller_config.py`. | |
464 | 2. Copy :file:`ipcontroller-engine.json` from :file:`~/.ipython/profile_<name>/security` on |
|
491 | 2. Copy :file:`ipcontroller-engine.json` from :file:`~/.ipython/profile_<name>/security` on | |
465 | the controller's host to the host where the engines will run. |
|
492 | the controller's host to the host where the engines will run. | |
466 | 3. Use :command:`ipengine` on the engine's hosts to start the engines. |
|
493 | 3. Use :command:`ipengine` on the engine's hosts to start the engines. | |
467 |
|
494 | |||
468 | The only thing you have to be careful of is to tell :command:`ipengine` where |
|
495 | The only thing you have to be careful of is to tell :command:`ipengine` where | |
469 | the :file:`ipcontroller-engine.json` file is located. There are two ways you |
|
496 | the :file:`ipcontroller-engine.json` file is located. There are two ways you | |
470 | can do this: |
|
497 | can do this: | |
471 |
|
498 | |||
472 | * Put :file:`ipcontroller-engine.json` in the :file:`~/.ipython/profile_<name>/security` |
|
499 | * Put :file:`ipcontroller-engine.json` in the :file:`~/.ipython/profile_<name>/security` | |
473 | directory on the engine's host, where it will be found automatically. |
|
500 | directory on the engine's host, where it will be found automatically. | |
474 | * Call :command:`ipengine` with the ``--file=full_path_to_the_file`` |
|
501 | * Call :command:`ipengine` with the ``--file=full_path_to_the_file`` | |
475 | flag. |
|
502 | flag. | |
476 |
|
503 | |||
477 | The ``file`` flag works like this:: |
|
504 | The ``file`` flag works like this:: | |
478 |
|
505 | |||
479 | $ ipengine --file=/path/to/my/ipcontroller-engine.json |
|
506 | $ ipengine --file=/path/to/my/ipcontroller-engine.json | |
480 |
|
507 | |||
481 | .. note:: |
|
508 | .. note:: | |
482 |
|
509 | |||
483 | If the controller's and engine's hosts all have a shared file system |
|
510 | If the controller's and engine's hosts all have a shared file system | |
484 | (:file:`~/.ipython/profile_<name>/security` is the same on all of them), then things |
|
511 | (:file:`~/.ipython/profile_<name>/security` is the same on all of them), then things | |
485 | will just work! |
|
512 | will just work! | |
486 |
|
513 | |||
487 | SSH Tunnels |
|
514 | SSH Tunnels | |
488 | *********** |
|
515 | *********** | |
489 |
|
516 | |||
490 | If your engines are not on the same LAN as the controller, or you are on a highly |
|
517 | If your engines are not on the same LAN as the controller, or you are on a highly | |
491 | restricted network where your nodes cannot see each others ports, then you can |
|
518 | restricted network where your nodes cannot see each others ports, then you can | |
492 | use SSH tunnels to connect engines to the controller. |
|
519 | use SSH tunnels to connect engines to the controller. | |
493 |
|
520 | |||
494 | .. note:: |
|
521 | .. note:: | |
495 |
|
522 | |||
496 | This does not work in all cases. Manual tunnels may be an option, but are |
|
523 | This does not work in all cases. Manual tunnels may be an option, but are | |
497 | highly inconvenient. Support for manual tunnels will be improved. |
|
524 | highly inconvenient. Support for manual tunnels will be improved. | |
498 |
|
525 | |||
499 | You can instruct all engines to use ssh, by specifying the ssh server in |
|
526 | You can instruct all engines to use ssh, by specifying the ssh server in | |
500 | :file:`ipcontroller-engine.json`: |
|
527 | :file:`ipcontroller-engine.json`: | |
501 |
|
528 | |||
502 | .. I know this is really JSON, but the example is a subset of Python: |
|
529 | .. I know this is really JSON, but the example is a subset of Python: | |
503 | .. sourcecode:: python |
|
530 | .. sourcecode:: python | |
504 |
|
531 | |||
505 | { |
|
532 | { | |
506 | "url":"tcp://192.168.1.123:56951", |
|
533 | "url":"tcp://192.168.1.123:56951", | |
507 | "exec_key":"26f4c040-587d-4a4e-b58b-030b96399584", |
|
534 | "exec_key":"26f4c040-587d-4a4e-b58b-030b96399584", | |
508 | "ssh":"user@example.com", |
|
535 | "ssh":"user@example.com", | |
509 | "location":"192.168.1.123" |
|
536 | "location":"192.168.1.123" | |
510 | } |
|
537 | } | |
511 |
|
538 | |||
512 | This will be specified if you give the ``--enginessh=use@example.com`` argument when |
|
539 | This will be specified if you give the ``--enginessh=use@example.com`` argument when | |
513 | starting :command:`ipcontroller`. |
|
540 | starting :command:`ipcontroller`. | |
514 |
|
541 | |||
515 | Or you can specify an ssh server on the command-line when starting an engine:: |
|
542 | Or you can specify an ssh server on the command-line when starting an engine:: | |
516 |
|
543 | |||
517 | $> ipengine --profile=foo --ssh=my.login.node |
|
544 | $> ipengine --profile=foo --ssh=my.login.node | |
518 |
|
545 | |||
519 | For example, if your system is totally restricted, then all connections will actually be |
|
546 | For example, if your system is totally restricted, then all connections will actually be | |
520 | loopback, and ssh tunnels will be used to connect engines to the controller:: |
|
547 | loopback, and ssh tunnels will be used to connect engines to the controller:: | |
521 |
|
548 | |||
522 | [node1] $> ipcontroller --enginessh=node1 |
|
549 | [node1] $> ipcontroller --enginessh=node1 | |
523 | [node2] $> ipengine |
|
550 | [node2] $> ipengine | |
524 | [node3] $> ipcluster engines --n=4 |
|
551 | [node3] $> ipcluster engines --n=4 | |
525 |
|
552 | |||
526 | Or if you want to start many engines on each node, the command `ipcluster engines --n=4` |
|
553 | Or if you want to start many engines on each node, the command `ipcluster engines --n=4` | |
527 | without any configuration is equivalent to running ipengine 4 times. |
|
554 | without any configuration is equivalent to running ipengine 4 times. | |
528 |
|
555 | |||
529 |
|
556 | |||
530 | Make JSON files persistent |
|
557 | Make JSON files persistent | |
531 | -------------------------- |
|
558 | -------------------------- | |
532 |
|
559 | |||
533 | At fist glance it may seem that that managing the JSON files is a bit |
|
560 | At fist glance it may seem that that managing the JSON files is a bit | |
534 | annoying. Going back to the house and key analogy, copying the JSON around |
|
561 | annoying. Going back to the house and key analogy, copying the JSON around | |
535 | each time you start the controller is like having to make a new key every time |
|
562 | each time you start the controller is like having to make a new key every time | |
536 | you want to unlock the door and enter your house. As with your house, you want |
|
563 | you want to unlock the door and enter your house. As with your house, you want | |
537 | to be able to create the key (or JSON file) once, and then simply use it at |
|
564 | to be able to create the key (or JSON file) once, and then simply use it at | |
538 | any point in the future. |
|
565 | any point in the future. | |
539 |
|
566 | |||
540 | To do this, the only thing you have to do is specify the `--reuse` flag, so that |
|
567 | To do this, the only thing you have to do is specify the `--reuse` flag, so that | |
541 | the connection information in the JSON files remains accurate:: |
|
568 | the connection information in the JSON files remains accurate:: | |
542 |
|
569 | |||
543 | $ ipcontroller --reuse |
|
570 | $ ipcontroller --reuse | |
544 |
|
571 | |||
545 | Then, just copy the JSON files over the first time and you are set. You can |
|
572 | Then, just copy the JSON files over the first time and you are set. You can | |
546 | start and stop the controller and engines any many times as you want in the |
|
573 | start and stop the controller and engines any many times as you want in the | |
547 | future, just make sure to tell the controller to reuse the file. |
|
574 | future, just make sure to tell the controller to reuse the file. | |
548 |
|
575 | |||
549 | .. note:: |
|
576 | .. note:: | |
550 |
|
577 | |||
551 | You may ask the question: what ports does the controller listen on if you |
|
578 | You may ask the question: what ports does the controller listen on if you | |
552 | don't tell is to use specific ones? The default is to use high random port |
|
579 | don't tell is to use specific ones? The default is to use high random port | |
553 | numbers. We do this for two reasons: i) to increase security through |
|
580 | numbers. We do this for two reasons: i) to increase security through | |
554 | obscurity and ii) to multiple controllers on a given host to start and |
|
581 | obscurity and ii) to multiple controllers on a given host to start and | |
555 | automatically use different ports. |
|
582 | automatically use different ports. | |
556 |
|
583 | |||
557 | Log files |
|
584 | Log files | |
558 | --------- |
|
585 | --------- | |
559 |
|
586 | |||
560 | All of the components of IPython have log files associated with them. |
|
587 | All of the components of IPython have log files associated with them. | |
561 | These log files can be extremely useful in debugging problems with |
|
588 | These log files can be extremely useful in debugging problems with | |
562 | IPython and can be found in the directory :file:`~/.ipython/profile_<name>/log`. |
|
589 | IPython and can be found in the directory :file:`~/.ipython/profile_<name>/log`. | |
563 | Sending the log files to us will often help us to debug any problems. |
|
590 | Sending the log files to us will often help us to debug any problems. | |
564 |
|
591 | |||
565 |
|
592 | |||
566 | Configuring `ipcontroller` |
|
593 | Configuring `ipcontroller` | |
567 | --------------------------- |
|
594 | --------------------------- | |
568 |
|
595 | |||
569 | The IPython Controller takes its configuration from the file :file:`ipcontroller_config.py` |
|
596 | The IPython Controller takes its configuration from the file :file:`ipcontroller_config.py` | |
570 | in the active profile directory. |
|
597 | in the active profile directory. | |
571 |
|
598 | |||
572 | Ports and addresses |
|
599 | Ports and addresses | |
573 | ******************* |
|
600 | ******************* | |
574 |
|
601 | |||
575 | In many cases, you will want to configure the Controller's network identity. By default, |
|
602 | In many cases, you will want to configure the Controller's network identity. By default, | |
576 | the Controller listens only on loopback, which is the most secure but often impractical. |
|
603 | the Controller listens only on loopback, which is the most secure but often impractical. | |
577 | To instruct the controller to listen on a specific interface, you can set the |
|
604 | To instruct the controller to listen on a specific interface, you can set the | |
578 | :attr:`HubFactory.ip` trait. To listen on all interfaces, simply specify: |
|
605 | :attr:`HubFactory.ip` trait. To listen on all interfaces, simply specify: | |
579 |
|
606 | |||
580 | .. sourcecode:: python |
|
607 | .. sourcecode:: python | |
581 |
|
608 | |||
582 | c.HubFactory.ip = '*' |
|
609 | c.HubFactory.ip = '*' | |
583 |
|
610 | |||
584 | When connecting to a Controller that is listening on loopback or behind a firewall, it may |
|
611 | When connecting to a Controller that is listening on loopback or behind a firewall, it may | |
585 | be necessary to specify an SSH server to use for tunnels, and the external IP of the |
|
612 | be necessary to specify an SSH server to use for tunnels, and the external IP of the | |
586 | Controller. If you specified that the HubFactory listen on loopback, or all interfaces, |
|
613 | Controller. If you specified that the HubFactory listen on loopback, or all interfaces, | |
587 | then IPython will try to guess the external IP. If you are on a system with VM network |
|
614 | then IPython will try to guess the external IP. If you are on a system with VM network | |
588 | devices, or many interfaces, this guess may be incorrect. In these cases, you will want |
|
615 | devices, or many interfaces, this guess may be incorrect. In these cases, you will want | |
589 | to specify the 'location' of the Controller. This is the IP of the machine the Controller |
|
616 | to specify the 'location' of the Controller. This is the IP of the machine the Controller | |
590 | is on, as seen by the clients, engines, or the SSH server used to tunnel connections. |
|
617 | is on, as seen by the clients, engines, or the SSH server used to tunnel connections. | |
591 |
|
618 | |||
592 | For example, to set up a cluster with a Controller on a work node, using ssh tunnels |
|
619 | For example, to set up a cluster with a Controller on a work node, using ssh tunnels | |
593 | through the login node, an example :file:`ipcontroller_config.py` might contain: |
|
620 | through the login node, an example :file:`ipcontroller_config.py` might contain: | |
594 |
|
621 | |||
595 | .. sourcecode:: python |
|
622 | .. sourcecode:: python | |
596 |
|
623 | |||
597 | # allow connections on all interfaces from engines |
|
624 | # allow connections on all interfaces from engines | |
598 | # engines on the same node will use loopback, while engines |
|
625 | # engines on the same node will use loopback, while engines | |
599 | # from other nodes will use an external IP |
|
626 | # from other nodes will use an external IP | |
600 | c.HubFactory.ip = '*' |
|
627 | c.HubFactory.ip = '*' | |
601 |
|
628 | |||
602 | # you typically only need to specify the location when there are extra |
|
629 | # you typically only need to specify the location when there are extra | |
603 | # interfaces that may not be visible to peer nodes (e.g. VM interfaces) |
|
630 | # interfaces that may not be visible to peer nodes (e.g. VM interfaces) | |
604 | c.HubFactory.location = '10.0.1.5' |
|
631 | c.HubFactory.location = '10.0.1.5' | |
605 | # or to get an automatic value, try this: |
|
632 | # or to get an automatic value, try this: | |
606 | import socket |
|
633 | import socket | |
607 | ex_ip = socket.gethostbyname_ex(socket.gethostname())[-1][0] |
|
634 | ex_ip = socket.gethostbyname_ex(socket.gethostname())[-1][0] | |
608 | c.HubFactory.location = ex_ip |
|
635 | c.HubFactory.location = ex_ip | |
609 |
|
636 | |||
610 | # now instruct clients to use the login node for SSH tunnels: |
|
637 | # now instruct clients to use the login node for SSH tunnels: | |
611 | c.HubFactory.ssh_server = 'login.mycluster.net' |
|
638 | c.HubFactory.ssh_server = 'login.mycluster.net' | |
612 |
|
639 | |||
613 | After doing this, your :file:`ipcontroller-client.json` file will look something like this: |
|
640 | After doing this, your :file:`ipcontroller-client.json` file will look something like this: | |
614 |
|
641 | |||
615 | .. this can be Python, despite the fact that it's actually JSON, because it's |
|
642 | .. this can be Python, despite the fact that it's actually JSON, because it's | |
616 | .. still valid Python |
|
643 | .. still valid Python | |
617 |
|
644 | |||
618 | .. sourcecode:: python |
|
645 | .. sourcecode:: python | |
619 |
|
646 | |||
620 | { |
|
647 | { | |
621 | "url":"tcp:\/\/*:43447", |
|
648 | "url":"tcp:\/\/*:43447", | |
622 | "exec_key":"9c7779e4-d08a-4c3b-ba8e-db1f80b562c1", |
|
649 | "exec_key":"9c7779e4-d08a-4c3b-ba8e-db1f80b562c1", | |
623 | "ssh":"login.mycluster.net", |
|
650 | "ssh":"login.mycluster.net", | |
624 | "location":"10.0.1.5" |
|
651 | "location":"10.0.1.5" | |
625 | } |
|
652 | } | |
626 |
|
653 | |||
627 | Then this file will be all you need for a client to connect to the controller, tunneling |
|
654 | Then this file will be all you need for a client to connect to the controller, tunneling | |
628 | SSH connections through login.mycluster.net. |
|
655 | SSH connections through login.mycluster.net. | |
629 |
|
656 | |||
630 | Database Backend |
|
657 | Database Backend | |
631 | **************** |
|
658 | **************** | |
632 |
|
659 | |||
633 | The Hub stores all messages and results passed between Clients and Engines. |
|
660 | The Hub stores all messages and results passed between Clients and Engines. | |
634 | For large and/or long-running clusters, it would be unreasonable to keep all |
|
661 | For large and/or long-running clusters, it would be unreasonable to keep all | |
635 | of this information in memory. For this reason, we have two database backends: |
|
662 | of this information in memory. For this reason, we have two database backends: | |
636 | [MongoDB]_ via PyMongo_, and SQLite with the stdlib :py:mod:`sqlite`. |
|
663 | [MongoDB]_ via PyMongo_, and SQLite with the stdlib :py:mod:`sqlite`. | |
637 |
|
664 | |||
638 | MongoDB is our design target, and the dict-like model it uses has driven our design. As far |
|
665 | MongoDB is our design target, and the dict-like model it uses has driven our design. As far | |
639 | as we are concerned, BSON can be considered essentially the same as JSON, adding support |
|
666 | as we are concerned, BSON can be considered essentially the same as JSON, adding support | |
640 | for binary data and datetime objects, and any new database backend must support the same |
|
667 | for binary data and datetime objects, and any new database backend must support the same | |
641 | data types. |
|
668 | data types. | |
642 |
|
669 | |||
643 | .. seealso:: |
|
670 | .. seealso:: | |
644 |
|
671 | |||
645 | MongoDB `BSON doc <http://www.mongodb.org/display/DOCS/BSON>`_ |
|
672 | MongoDB `BSON doc <http://www.mongodb.org/display/DOCS/BSON>`_ | |
646 |
|
673 | |||
647 | To use one of these backends, you must set the :attr:`HubFactory.db_class` trait: |
|
674 | To use one of these backends, you must set the :attr:`HubFactory.db_class` trait: | |
648 |
|
675 | |||
649 | .. sourcecode:: python |
|
676 | .. sourcecode:: python | |
650 |
|
677 | |||
651 | # for a simple dict-based in-memory implementation, use dictdb |
|
678 | # for a simple dict-based in-memory implementation, use dictdb | |
652 | # This is the default and the fastest, since it doesn't involve the filesystem |
|
679 | # This is the default and the fastest, since it doesn't involve the filesystem | |
653 | c.HubFactory.db_class = 'IPython.parallel.controller.dictdb.DictDB' |
|
680 | c.HubFactory.db_class = 'IPython.parallel.controller.dictdb.DictDB' | |
654 |
|
681 | |||
655 | # To use MongoDB: |
|
682 | # To use MongoDB: | |
656 | c.HubFactory.db_class = 'IPython.parallel.controller.mongodb.MongoDB' |
|
683 | c.HubFactory.db_class = 'IPython.parallel.controller.mongodb.MongoDB' | |
657 |
|
684 | |||
658 | # and SQLite: |
|
685 | # and SQLite: | |
659 | c.HubFactory.db_class = 'IPython.parallel.controller.sqlitedb.SQLiteDB' |
|
686 | c.HubFactory.db_class = 'IPython.parallel.controller.sqlitedb.SQLiteDB' | |
660 |
|
687 | |||
661 | When using the proper databases, you can actually allow for tasks to persist from |
|
688 | When using the proper databases, you can actually allow for tasks to persist from | |
662 | one session to the next by specifying the MongoDB database or SQLite table in |
|
689 | one session to the next by specifying the MongoDB database or SQLite table in | |
663 | which tasks are to be stored. The default is to use a table named for the Hub's Session, |
|
690 | which tasks are to be stored. The default is to use a table named for the Hub's Session, | |
664 | which is a UUID, and thus different every time. |
|
691 | which is a UUID, and thus different every time. | |
665 |
|
692 | |||
666 | .. sourcecode:: python |
|
693 | .. sourcecode:: python | |
667 |
|
694 | |||
668 | # To keep persistant task history in MongoDB: |
|
695 | # To keep persistant task history in MongoDB: | |
669 | c.MongoDB.database = 'tasks' |
|
696 | c.MongoDB.database = 'tasks' | |
670 |
|
697 | |||
671 | # and in SQLite: |
|
698 | # and in SQLite: | |
672 | c.SQLiteDB.table = 'tasks' |
|
699 | c.SQLiteDB.table = 'tasks' | |
673 |
|
700 | |||
674 |
|
701 | |||
675 | Since MongoDB servers can be running remotely or configured to listen on a particular port, |
|
702 | Since MongoDB servers can be running remotely or configured to listen on a particular port, | |
676 | you can specify any arguments you may need to the PyMongo `Connection |
|
703 | you can specify any arguments you may need to the PyMongo `Connection | |
677 | <http://api.mongodb.org/python/1.9/api/pymongo/connection.html#pymongo.connection.Connection>`_: |
|
704 | <http://api.mongodb.org/python/1.9/api/pymongo/connection.html#pymongo.connection.Connection>`_: | |
678 |
|
705 | |||
679 | .. sourcecode:: python |
|
706 | .. sourcecode:: python | |
680 |
|
707 | |||
681 | # positional args to pymongo.Connection |
|
708 | # positional args to pymongo.Connection | |
682 | c.MongoDB.connection_args = [] |
|
709 | c.MongoDB.connection_args = [] | |
683 |
|
710 | |||
684 | # keyword args to pymongo.Connection |
|
711 | # keyword args to pymongo.Connection | |
685 | c.MongoDB.connection_kwargs = {} |
|
712 | c.MongoDB.connection_kwargs = {} | |
686 |
|
713 | |||
687 | .. _MongoDB: http://www.mongodb.org |
|
714 | .. _MongoDB: http://www.mongodb.org | |
688 | .. _PyMongo: http://api.mongodb.org/python/1.9/ |
|
715 | .. _PyMongo: http://api.mongodb.org/python/1.9/ | |
689 |
|
716 | |||
690 | Configuring `ipengine` |
|
717 | Configuring `ipengine` | |
691 | ----------------------- |
|
718 | ----------------------- | |
692 |
|
719 | |||
693 | The IPython Engine takes its configuration from the file :file:`ipengine_config.py` |
|
720 | The IPython Engine takes its configuration from the file :file:`ipengine_config.py` | |
694 |
|
721 | |||
695 | The Engine itself also has some amount of configuration. Most of this |
|
722 | The Engine itself also has some amount of configuration. Most of this | |
696 | has to do with initializing MPI or connecting to the controller. |
|
723 | has to do with initializing MPI or connecting to the controller. | |
697 |
|
724 | |||
698 | To instruct the Engine to initialize with an MPI environment set up by |
|
725 | To instruct the Engine to initialize with an MPI environment set up by | |
699 | mpi4py, add: |
|
726 | mpi4py, add: | |
700 |
|
727 | |||
701 | .. sourcecode:: python |
|
728 | .. sourcecode:: python | |
702 |
|
729 | |||
703 | c.MPI.use = 'mpi4py' |
|
730 | c.MPI.use = 'mpi4py' | |
704 |
|
731 | |||
705 | In this case, the Engine will use our default mpi4py init script to set up |
|
732 | In this case, the Engine will use our default mpi4py init script to set up | |
706 | the MPI environment prior to exection. We have default init scripts for |
|
733 | the MPI environment prior to exection. We have default init scripts for | |
707 | mpi4py and pytrilinos. If you want to specify your own code to be run |
|
734 | mpi4py and pytrilinos. If you want to specify your own code to be run | |
708 | at the beginning, specify `c.MPI.init_script`. |
|
735 | at the beginning, specify `c.MPI.init_script`. | |
709 |
|
736 | |||
710 | You can also specify a file or python command to be run at startup of the |
|
737 | You can also specify a file or python command to be run at startup of the | |
711 | Engine: |
|
738 | Engine: | |
712 |
|
739 | |||
713 | .. sourcecode:: python |
|
740 | .. sourcecode:: python | |
714 |
|
741 | |||
715 | c.IPEngineApp.startup_script = u'/path/to/my/startup.py' |
|
742 | c.IPEngineApp.startup_script = u'/path/to/my/startup.py' | |
716 |
|
743 | |||
717 | c.IPEngineApp.startup_command = 'import numpy, scipy, mpi4py' |
|
744 | c.IPEngineApp.startup_command = 'import numpy, scipy, mpi4py' | |
718 |
|
745 | |||
719 | These commands/files will be run again, after each |
|
746 | These commands/files will be run again, after each | |
720 |
|
747 | |||
721 | It's also useful on systems with shared filesystems to run the engines |
|
748 | It's also useful on systems with shared filesystems to run the engines | |
722 | in some scratch directory. This can be set with: |
|
749 | in some scratch directory. This can be set with: | |
723 |
|
750 | |||
724 | .. sourcecode:: python |
|
751 | .. sourcecode:: python | |
725 |
|
752 | |||
726 | c.IPEngineApp.work_dir = u'/path/to/scratch/' |
|
753 | c.IPEngineApp.work_dir = u'/path/to/scratch/' | |
727 |
|
754 | |||
728 |
|
755 | |||
729 |
|
756 | |||
730 | .. [MongoDB] MongoDB database http://www.mongodb.org |
|
757 | .. [MongoDB] MongoDB database http://www.mongodb.org | |
731 |
|
758 | |||
732 | .. [PBS] Portable Batch System http://www.openpbs.org |
|
759 | .. [PBS] Portable Batch System http://www.openpbs.org | |
733 |
|
760 | |||
734 | .. [SSH] SSH-Agent http://en.wikipedia.org/wiki/ssh-agent |
|
761 | .. [SSH] SSH-Agent http://en.wikipedia.org/wiki/ssh-agent |
@@ -1,334 +1,332 b'' | |||||
1 | ============================================ |
|
1 | ============================================ | |
2 | Getting started with Windows HPC Server 2008 |
|
2 | Getting started with Windows HPC Server 2008 | |
3 | ============================================ |
|
3 | ============================================ | |
4 |
|
4 | |||
5 | .. note:: |
|
5 | .. note:: | |
6 |
|
6 | |||
7 | Not adapted to zmq yet |
|
7 | Not adapted to zmq yet | |
8 |
|
8 | |||
9 | Introduction |
|
9 | Introduction | |
10 | ============ |
|
10 | ============ | |
11 |
|
11 | |||
12 | The Python programming language is an increasingly popular language for |
|
12 | The Python programming language is an increasingly popular language for | |
13 | numerical computing. This is due to a unique combination of factors. First, |
|
13 | numerical computing. This is due to a unique combination of factors. First, | |
14 | Python is a high-level and *interactive* language that is well matched to |
|
14 | Python is a high-level and *interactive* language that is well matched to | |
15 | interactive numerical work. Second, it is easy (often times trivial) to |
|
15 | interactive numerical work. Second, it is easy (often times trivial) to | |
16 | integrate legacy C/C++/Fortran code into Python. Third, a large number of |
|
16 | integrate legacy C/C++/Fortran code into Python. Third, a large number of | |
17 | high-quality open source projects provide all the needed building blocks for |
|
17 | high-quality open source projects provide all the needed building blocks for | |
18 | numerical computing: numerical arrays (NumPy), algorithms (SciPy), 2D/3D |
|
18 | numerical computing: numerical arrays (NumPy), algorithms (SciPy), 2D/3D | |
19 | Visualization (Matplotlib, Mayavi, Chaco), Symbolic Mathematics (Sage, Sympy) |
|
19 | Visualization (Matplotlib, Mayavi, Chaco), Symbolic Mathematics (Sage, Sympy) | |
20 | and others. |
|
20 | and others. | |
21 |
|
21 | |||
22 | The IPython project is a core part of this open-source toolchain and is |
|
22 | The IPython project is a core part of this open-source toolchain and is | |
23 | focused on creating a comprehensive environment for interactive and |
|
23 | focused on creating a comprehensive environment for interactive and | |
24 | exploratory computing in the Python programming language. It enables all of |
|
24 | exploratory computing in the Python programming language. It enables all of | |
25 | the above tools to be used interactively and consists of two main components: |
|
25 | the above tools to be used interactively and consists of two main components: | |
26 |
|
26 | |||
27 | * An enhanced interactive Python shell with support for interactive plotting |
|
27 | * An enhanced interactive Python shell with support for interactive plotting | |
28 | and visualization. |
|
28 | and visualization. | |
29 | * An architecture for interactive parallel computing. |
|
29 | * An architecture for interactive parallel computing. | |
30 |
|
30 | |||
31 | With these components, it is possible to perform all aspects of a parallel |
|
31 | With these components, it is possible to perform all aspects of a parallel | |
32 | computation interactively. This type of workflow is particularly relevant in |
|
32 | computation interactively. This type of workflow is particularly relevant in | |
33 | scientific and numerical computing where algorithms, code and data are |
|
33 | scientific and numerical computing where algorithms, code and data are | |
34 | continually evolving as the user/developer explores a problem. The broad |
|
34 | continually evolving as the user/developer explores a problem. The broad | |
35 | treads in computing (commodity clusters, multicore, cloud computing, etc.) |
|
35 | treads in computing (commodity clusters, multicore, cloud computing, etc.) | |
36 | make these capabilities of IPython particularly relevant. |
|
36 | make these capabilities of IPython particularly relevant. | |
37 |
|
37 | |||
38 | While IPython is a cross platform tool, it has particularly strong support for |
|
38 | While IPython is a cross platform tool, it has particularly strong support for | |
39 | Windows based compute clusters running Windows HPC Server 2008. This document |
|
39 | Windows based compute clusters running Windows HPC Server 2008. This document | |
40 | describes how to get started with IPython on Windows HPC Server 2008. The |
|
40 | describes how to get started with IPython on Windows HPC Server 2008. The | |
41 | content and emphasis here is practical: installing IPython, configuring |
|
41 | content and emphasis here is practical: installing IPython, configuring | |
42 | IPython to use the Windows job scheduler and running example parallel programs |
|
42 | IPython to use the Windows job scheduler and running example parallel programs | |
43 | interactively. A more complete description of IPython's parallel computing |
|
43 | interactively. A more complete description of IPython's parallel computing | |
44 | capabilities can be found in IPython's online documentation |
|
44 | capabilities can be found in IPython's online documentation | |
45 | (http://ipython.org/documentation.html). |
|
45 | (http://ipython.org/documentation.html). | |
46 |
|
46 | |||
47 | Setting up your Windows cluster |
|
47 | Setting up your Windows cluster | |
48 | =============================== |
|
48 | =============================== | |
49 |
|
49 | |||
50 | This document assumes that you already have a cluster running Windows |
|
50 | This document assumes that you already have a cluster running Windows | |
51 | HPC Server 2008. Here is a broad overview of what is involved with setting up |
|
51 | HPC Server 2008. Here is a broad overview of what is involved with setting up | |
52 | such a cluster: |
|
52 | such a cluster: | |
53 |
|
53 | |||
54 | 1. Install Windows Server 2008 on the head and compute nodes in the cluster. |
|
54 | 1. Install Windows Server 2008 on the head and compute nodes in the cluster. | |
55 | 2. Setup the network configuration on each host. Each host should have a |
|
55 | 2. Setup the network configuration on each host. Each host should have a | |
56 | static IP address. |
|
56 | static IP address. | |
57 | 3. On the head node, activate the "Active Directory Domain Services" role |
|
57 | 3. On the head node, activate the "Active Directory Domain Services" role | |
58 | and make the head node the domain controller. |
|
58 | and make the head node the domain controller. | |
59 | 4. Join the compute nodes to the newly created Active Directory (AD) domain. |
|
59 | 4. Join the compute nodes to the newly created Active Directory (AD) domain. | |
60 | 5. Setup user accounts in the domain with shared home directories. |
|
60 | 5. Setup user accounts in the domain with shared home directories. | |
61 | 6. Install the HPC Pack 2008 on the head node to create a cluster. |
|
61 | 6. Install the HPC Pack 2008 on the head node to create a cluster. | |
62 | 7. Install the HPC Pack 2008 on the compute nodes. |
|
62 | 7. Install the HPC Pack 2008 on the compute nodes. | |
63 |
|
63 | |||
64 | More details about installing and configuring Windows HPC Server 2008 can be |
|
64 | More details about installing and configuring Windows HPC Server 2008 can be | |
65 | found on the Windows HPC Home Page (http://www.microsoft.com/hpc). Regardless |
|
65 | found on the Windows HPC Home Page (http://www.microsoft.com/hpc). Regardless | |
66 | of what steps you follow to set up your cluster, the remainder of this |
|
66 | of what steps you follow to set up your cluster, the remainder of this | |
67 | document will assume that: |
|
67 | document will assume that: | |
68 |
|
68 | |||
69 | * There are domain users that can log on to the AD domain and submit jobs |
|
69 | * There are domain users that can log on to the AD domain and submit jobs | |
70 | to the cluster scheduler. |
|
70 | to the cluster scheduler. | |
71 | * These domain users have shared home directories. While shared home |
|
71 | * These domain users have shared home directories. While shared home | |
72 | directories are not required to use IPython, they make it much easier to |
|
72 | directories are not required to use IPython, they make it much easier to | |
73 | use IPython. |
|
73 | use IPython. | |
74 |
|
74 | |||
75 | Installation of IPython and its dependencies |
|
75 | Installation of IPython and its dependencies | |
76 | ============================================ |
|
76 | ============================================ | |
77 |
|
77 | |||
78 | IPython and all of its dependencies are freely available and open source. |
|
78 | IPython and all of its dependencies are freely available and open source. | |
79 | These packages provide a powerful and cost-effective approach to numerical and |
|
79 | These packages provide a powerful and cost-effective approach to numerical and | |
80 | scientific computing on Windows. The following dependencies are needed to run |
|
80 | scientific computing on Windows. The following dependencies are needed to run | |
81 | IPython on Windows: |
|
81 | IPython on Windows: | |
82 |
|
82 | |||
83 | * Python 2.6 or 2.7 (http://www.python.org) |
|
83 | * Python 2.6 or 2.7 (http://www.python.org) | |
84 | * pywin32 (http://sourceforge.net/projects/pywin32/) |
|
84 | * pywin32 (http://sourceforge.net/projects/pywin32/) | |
85 | * PyReadline (https://launchpad.net/pyreadline) |
|
85 | * PyReadline (https://launchpad.net/pyreadline) | |
86 | * pyzmq (http://github.com/zeromq/pyzmq/downloads) |
|
86 | * pyzmq (http://github.com/zeromq/pyzmq/downloads) | |
87 | * IPython (http://ipython.org) |
|
87 | * IPython (http://ipython.org) | |
88 |
|
88 | |||
89 | In addition, the following dependencies are needed to run the demos described |
|
89 | In addition, the following dependencies are needed to run the demos described | |
90 | in this document. |
|
90 | in this document. | |
91 |
|
91 | |||
92 | * NumPy and SciPy (http://www.scipy.org) |
|
92 | * NumPy and SciPy (http://www.scipy.org) | |
93 | * Matplotlib (http://matplotlib.sourceforge.net/) |
|
93 | * Matplotlib (http://matplotlib.sourceforge.net/) | |
94 |
|
94 | |||
95 | The easiest way of obtaining these dependencies is through the Enthought |
|
95 | The easiest way of obtaining these dependencies is through the Enthought | |
96 | Python Distribution (EPD) (http://www.enthought.com/products/epd.php). EPD is |
|
96 | Python Distribution (EPD) (http://www.enthought.com/products/epd.php). EPD is | |
97 | produced by Enthought, Inc. and contains all of these packages and others in a |
|
97 | produced by Enthought, Inc. and contains all of these packages and others in a | |
98 | single installer and is available free for academic users. While it is also |
|
98 | single installer and is available free for academic users. While it is also | |
99 | possible to download and install each package individually, this is a tedious |
|
99 | possible to download and install each package individually, this is a tedious | |
100 | process. Thus, we highly recommend using EPD to install these packages on |
|
100 | process. Thus, we highly recommend using EPD to install these packages on | |
101 | Windows. |
|
101 | Windows. | |
102 |
|
102 | |||
103 | Regardless of how you install the dependencies, here are the steps you will |
|
103 | Regardless of how you install the dependencies, here are the steps you will | |
104 | need to follow: |
|
104 | need to follow: | |
105 |
|
105 | |||
106 | 1. Install all of the packages listed above, either individually or using EPD |
|
106 | 1. Install all of the packages listed above, either individually or using EPD | |
107 | on the head node, compute nodes and user workstations. |
|
107 | on the head node, compute nodes and user workstations. | |
108 |
|
108 | |||
109 | 2. Make sure that :file:`C:\\Python27` and :file:`C:\\Python27\\Scripts` are |
|
109 | 2. Make sure that :file:`C:\\Python27` and :file:`C:\\Python27\\Scripts` are | |
110 | in the system :envvar:`%PATH%` variable on each node. |
|
110 | in the system :envvar:`%PATH%` variable on each node. | |
111 |
|
111 | |||
112 | 3. Install the latest development version of IPython. This can be done by |
|
112 | 3. Install the latest development version of IPython. This can be done by | |
113 | downloading the the development version from the IPython website |
|
113 | downloading the the development version from the IPython website | |
114 | (http://ipython.org) and following the installation instructions. |
|
114 | (http://ipython.org) and following the installation instructions. | |
115 |
|
115 | |||
116 | Further details about installing IPython or its dependencies can be found in |
|
116 | Further details about installing IPython or its dependencies can be found in | |
117 | the online IPython documentation (http://ipython.org/documentation.html) |
|
117 | the online IPython documentation (http://ipython.org/documentation.html) | |
118 | Once you are finished with the installation, you can try IPython out by |
|
118 | Once you are finished with the installation, you can try IPython out by | |
119 | opening a Windows Command Prompt and typing ``ipython``. This will |
|
119 | opening a Windows Command Prompt and typing ``ipython``. This will | |
120 | start IPython's interactive shell and you should see something like the |
|
120 | start IPython's interactive shell and you should see something like the | |
121 | following screenshot: |
|
121 | following screenshot: | |
122 |
|
122 | |||
123 | .. image:: figs/ipython_shell.* |
|
123 | .. image:: figs/ipython_shell.* | |
124 |
|
124 | |||
125 | Starting an IPython cluster |
|
125 | Starting an IPython cluster | |
126 | =========================== |
|
126 | =========================== | |
127 |
|
127 | |||
128 | To use IPython's parallel computing capabilities, you will need to start an |
|
128 | To use IPython's parallel computing capabilities, you will need to start an | |
129 | IPython cluster. An IPython cluster consists of one controller and multiple |
|
129 | IPython cluster. An IPython cluster consists of one controller and multiple | |
130 | engines: |
|
130 | engines: | |
131 |
|
131 | |||
132 | IPython controller |
|
132 | IPython controller | |
133 | The IPython controller manages the engines and acts as a gateway between |
|
133 | The IPython controller manages the engines and acts as a gateway between | |
134 | the engines and the client, which runs in the user's interactive IPython |
|
134 | the engines and the client, which runs in the user's interactive IPython | |
135 | session. The controller is started using the :command:`ipcontroller` |
|
135 | session. The controller is started using the :command:`ipcontroller` | |
136 | command. |
|
136 | command. | |
137 |
|
137 | |||
138 | IPython engine |
|
138 | IPython engine | |
139 | IPython engines run a user's Python code in parallel on the compute nodes. |
|
139 | IPython engines run a user's Python code in parallel on the compute nodes. | |
140 | Engines are starting using the :command:`ipengine` command. |
|
140 | Engines are starting using the :command:`ipengine` command. | |
141 |
|
141 | |||
142 | Once these processes are started, a user can run Python code interactively and |
|
142 | Once these processes are started, a user can run Python code interactively and | |
143 | in parallel on the engines from within the IPython shell using an appropriate |
|
143 | in parallel on the engines from within the IPython shell using an appropriate | |
144 | client. This includes the ability to interact with, plot and visualize data |
|
144 | client. This includes the ability to interact with, plot and visualize data | |
145 | from the engines. |
|
145 | from the engines. | |
146 |
|
146 | |||
147 | IPython has a command line program called :command:`ipcluster` that automates |
|
147 | IPython has a command line program called :command:`ipcluster` that automates | |
148 | all aspects of starting the controller and engines on the compute nodes. |
|
148 | all aspects of starting the controller and engines on the compute nodes. | |
149 | :command:`ipcluster` has full support for the Windows HPC job scheduler, |
|
149 | :command:`ipcluster` has full support for the Windows HPC job scheduler, | |
150 | meaning that :command:`ipcluster` can use this job scheduler to start the |
|
150 | meaning that :command:`ipcluster` can use this job scheduler to start the | |
151 | controller and engines. In our experience, the Windows HPC job scheduler is |
|
151 | controller and engines. In our experience, the Windows HPC job scheduler is | |
152 | particularly well suited for interactive applications, such as IPython. Once |
|
152 | particularly well suited for interactive applications, such as IPython. Once | |
153 | :command:`ipcluster` is configured properly, a user can start an IPython |
|
153 | :command:`ipcluster` is configured properly, a user can start an IPython | |
154 | cluster from their local workstation almost instantly, without having to log |
|
154 | cluster from their local workstation almost instantly, without having to log | |
155 | on to the head node (as is typically required by Unix based job schedulers). |
|
155 | on to the head node (as is typically required by Unix based job schedulers). | |
156 | This enables a user to move seamlessly between serial and parallel |
|
156 | This enables a user to move seamlessly between serial and parallel | |
157 | computations. |
|
157 | computations. | |
158 |
|
158 | |||
159 | In this section we show how to use :command:`ipcluster` to start an IPython |
|
159 | In this section we show how to use :command:`ipcluster` to start an IPython | |
160 | cluster using the Windows HPC Server 2008 job scheduler. To make sure that |
|
160 | cluster using the Windows HPC Server 2008 job scheduler. To make sure that | |
161 | :command:`ipcluster` is installed and working properly, you should first try |
|
161 | :command:`ipcluster` is installed and working properly, you should first try | |
162 | to start an IPython cluster on your local host. To do this, open a Windows |
|
162 | to start an IPython cluster on your local host. To do this, open a Windows | |
163 | Command Prompt and type the following command:: |
|
163 | Command Prompt and type the following command:: | |
164 |
|
164 | |||
165 | ipcluster start n=2 |
|
165 | ipcluster start n=2 | |
166 |
|
166 | |||
167 | You should see a number of messages printed to the screen, ending with |
|
167 | You should see a number of messages printed to the screen, ending with | |
168 | "IPython cluster: started". The result should look something like the following |
|
168 | "IPython cluster: started". The result should look something like the following | |
169 | screenshot: |
|
169 | screenshot: | |
170 |
|
170 | |||
171 | .. image:: figs/ipcluster_start.* |
|
171 | .. image:: figs/ipcluster_start.* | |
172 |
|
172 | |||
173 | At this point, the controller and two engines are running on your local host. |
|
173 | At this point, the controller and two engines are running on your local host. | |
174 | This configuration is useful for testing and for situations where you want to |
|
174 | This configuration is useful for testing and for situations where you want to | |
175 | take advantage of multiple cores on your local computer. |
|
175 | take advantage of multiple cores on your local computer. | |
176 |
|
176 | |||
177 | Now that we have confirmed that :command:`ipcluster` is working properly, we |
|
177 | Now that we have confirmed that :command:`ipcluster` is working properly, we | |
178 | describe how to configure and run an IPython cluster on an actual compute |
|
178 | describe how to configure and run an IPython cluster on an actual compute | |
179 | cluster running Windows HPC Server 2008. Here is an outline of the needed |
|
179 | cluster running Windows HPC Server 2008. Here is an outline of the needed | |
180 | steps: |
|
180 | steps: | |
181 |
|
181 | |||
182 | 1. Create a cluster profile using: ``ipython profile create --parallel profile=mycluster`` |
|
182 | 1. Create a cluster profile using: ``ipython profile create --parallel profile=mycluster`` | |
183 |
|
183 | |||
184 | 2. Edit configuration files in the directory :file:`.ipython\\cluster_mycluster` |
|
184 | 2. Edit configuration files in the directory :file:`.ipython\\cluster_mycluster` | |
185 |
|
185 | |||
186 | 3. Start the cluster using: ``ipcluser start profile=mycluster n=32`` |
|
186 | 3. Start the cluster using: ``ipcluser start profile=mycluster n=32`` | |
187 |
|
187 | |||
188 | Creating a cluster profile |
|
188 | Creating a cluster profile | |
189 | -------------------------- |
|
189 | -------------------------- | |
190 |
|
190 | |||
191 | In most cases, you will have to create a cluster profile to use IPython on a |
|
191 | In most cases, you will have to create a cluster profile to use IPython on a | |
192 | cluster. A cluster profile is a name (like "mycluster") that is associated |
|
192 | cluster. A cluster profile is a name (like "mycluster") that is associated | |
193 | with a particular cluster configuration. The profile name is used by |
|
193 | with a particular cluster configuration. The profile name is used by | |
194 | :command:`ipcluster` when working with the cluster. |
|
194 | :command:`ipcluster` when working with the cluster. | |
195 |
|
195 | |||
196 | Associated with each cluster profile is a cluster directory. This cluster |
|
196 | Associated with each cluster profile is a cluster directory. This cluster | |
197 | directory is a specially named directory (typically located in the |
|
197 | directory is a specially named directory (typically located in the | |
198 | :file:`.ipython` subdirectory of your home directory) that contains the |
|
198 | :file:`.ipython` subdirectory of your home directory) that contains the | |
199 | configuration files for a particular cluster profile, as well as log files and |
|
199 | configuration files for a particular cluster profile, as well as log files and | |
200 | security keys. The naming convention for cluster directories is: |
|
200 | security keys. The naming convention for cluster directories is: | |
201 | :file:`profile_<profile name>`. Thus, the cluster directory for a profile named |
|
201 | :file:`profile_<profile name>`. Thus, the cluster directory for a profile named | |
202 | "foo" would be :file:`.ipython\\cluster_foo`. |
|
202 | "foo" would be :file:`.ipython\\cluster_foo`. | |
203 |
|
203 | |||
204 | To create a new cluster profile (named "mycluster") and the associated cluster |
|
204 | To create a new cluster profile (named "mycluster") and the associated cluster | |
205 | directory, type the following command at the Windows Command Prompt:: |
|
205 | directory, type the following command at the Windows Command Prompt:: | |
206 |
|
206 | |||
207 | ipython profile create --parallel --profile=mycluster |
|
207 | ipython profile create --parallel --profile=mycluster | |
208 |
|
208 | |||
209 | The output of this command is shown in the screenshot below. Notice how |
|
209 | The output of this command is shown in the screenshot below. Notice how | |
210 | :command:`ipcluster` prints out the location of the newly created cluster |
|
210 | :command:`ipcluster` prints out the location of the newly created cluster | |
211 | directory. |
|
211 | directory. | |
212 |
|
212 | |||
213 | .. image:: figs/ipcluster_create.* |
|
213 | .. image:: figs/ipcluster_create.* | |
214 |
|
214 | |||
215 | Configuring a cluster profile |
|
215 | Configuring a cluster profile | |
216 | ----------------------------- |
|
216 | ----------------------------- | |
217 |
|
217 | |||
218 | Next, you will need to configure the newly created cluster profile by editing |
|
218 | Next, you will need to configure the newly created cluster profile by editing | |
219 | the following configuration files in the cluster directory: |
|
219 | the following configuration files in the cluster directory: | |
220 |
|
220 | |||
221 | * :file:`ipcluster_config.py` |
|
221 | * :file:`ipcluster_config.py` | |
222 | * :file:`ipcontroller_config.py` |
|
222 | * :file:`ipcontroller_config.py` | |
223 | * :file:`ipengine_config.py` |
|
223 | * :file:`ipengine_config.py` | |
224 |
|
224 | |||
225 | When :command:`ipcluster` is run, these configuration files are used to |
|
225 | When :command:`ipcluster` is run, these configuration files are used to | |
226 | determine how the engines and controller will be started. In most cases, |
|
226 | determine how the engines and controller will be started. In most cases, | |
227 | you will only have to set a few of the attributes in these files. |
|
227 | you will only have to set a few of the attributes in these files. | |
228 |
|
228 | |||
229 | To configure :command:`ipcluster` to use the Windows HPC job scheduler, you |
|
229 | To configure :command:`ipcluster` to use the Windows HPC job scheduler, you | |
230 | will need to edit the following attributes in the file |
|
230 | will need to edit the following attributes in the file | |
231 | :file:`ipcluster_config.py`:: |
|
231 | :file:`ipcluster_config.py`:: | |
232 |
|
232 | |||
233 | # Set these at the top of the file to tell ipcluster to use the |
|
233 | # Set these at the top of the file to tell ipcluster to use the | |
234 | # Windows HPC job scheduler. |
|
234 | # Windows HPC job scheduler. | |
235 |
c.IPClusterStart.controller_launcher |
|
235 | c.IPClusterStart.controller_launcher_class = 'WindowsHPCControllerLauncher' | |
236 | 'IPython.parallel.apps.launcher.WindowsHPCControllerLauncher' |
|
236 | c.IPClusterEngines.engine_launcher_class = 'WindowsHPCEngineSetLauncher' | |
237 | c.IPClusterEngines.engine_launcher = \ |
|
|||
238 | 'IPython.parallel.apps.launcher.WindowsHPCEngineSetLauncher' |
|
|||
239 |
|
237 | |||
240 | # Set these to the host name of the scheduler (head node) of your cluster. |
|
238 | # Set these to the host name of the scheduler (head node) of your cluster. | |
241 | c.WindowsHPCControllerLauncher.scheduler = 'HEADNODE' |
|
239 | c.WindowsHPCControllerLauncher.scheduler = 'HEADNODE' | |
242 | c.WindowsHPCEngineSetLauncher.scheduler = 'HEADNODE' |
|
240 | c.WindowsHPCEngineSetLauncher.scheduler = 'HEADNODE' | |
243 |
|
241 | |||
244 | There are a number of other configuration attributes that can be set, but |
|
242 | There are a number of other configuration attributes that can be set, but | |
245 | in most cases these will be sufficient to get you started. |
|
243 | in most cases these will be sufficient to get you started. | |
246 |
|
244 | |||
247 | .. warning:: |
|
245 | .. warning:: | |
248 | If any of your configuration attributes involve specifying the location |
|
246 | If any of your configuration attributes involve specifying the location | |
249 | of shared directories or files, you must make sure that you use UNC paths |
|
247 | of shared directories or files, you must make sure that you use UNC paths | |
250 | like :file:`\\\\host\\share`. It is also important that you specify |
|
248 | like :file:`\\\\host\\share`. It is also important that you specify | |
251 | these paths using raw Python strings: ``r'\\host\share'`` to make sure |
|
249 | these paths using raw Python strings: ``r'\\host\share'`` to make sure | |
252 | that the backslashes are properly escaped. |
|
250 | that the backslashes are properly escaped. | |
253 |
|
251 | |||
254 | Starting the cluster profile |
|
252 | Starting the cluster profile | |
255 | ---------------------------- |
|
253 | ---------------------------- | |
256 |
|
254 | |||
257 | Once a cluster profile has been configured, starting an IPython cluster using |
|
255 | Once a cluster profile has been configured, starting an IPython cluster using | |
258 | the profile is simple:: |
|
256 | the profile is simple:: | |
259 |
|
257 | |||
260 | ipcluster start --profile=mycluster -n 32 |
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258 | ipcluster start --profile=mycluster -n 32 | |
261 |
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259 | |||
262 | The ``-n`` option tells :command:`ipcluster` how many engines to start (in |
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260 | The ``-n`` option tells :command:`ipcluster` how many engines to start (in | |
263 | this case 32). Stopping the cluster is as simple as typing Control-C. |
|
261 | this case 32). Stopping the cluster is as simple as typing Control-C. | |
264 |
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262 | |||
265 | Using the HPC Job Manager |
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263 | Using the HPC Job Manager | |
266 | ------------------------- |
|
264 | ------------------------- | |
267 |
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265 | |||
268 | When ``ipcluster start`` is run the first time, :command:`ipcluster` creates |
|
266 | When ``ipcluster start`` is run the first time, :command:`ipcluster` creates | |
269 | two XML job description files in the cluster directory: |
|
267 | two XML job description files in the cluster directory: | |
270 |
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268 | |||
271 | * :file:`ipcontroller_job.xml` |
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269 | * :file:`ipcontroller_job.xml` | |
272 | * :file:`ipengineset_job.xml` |
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270 | * :file:`ipengineset_job.xml` | |
273 |
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271 | |||
274 | Once these files have been created, they can be imported into the HPC Job |
|
272 | Once these files have been created, they can be imported into the HPC Job | |
275 | Manager application. Then, the controller and engines for that profile can be |
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273 | Manager application. Then, the controller and engines for that profile can be | |
276 | started using the HPC Job Manager directly, without using :command:`ipcluster`. |
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274 | started using the HPC Job Manager directly, without using :command:`ipcluster`. | |
277 | However, anytime the cluster profile is re-configured, ``ipcluster start`` |
|
275 | However, anytime the cluster profile is re-configured, ``ipcluster start`` | |
278 | must be run again to regenerate the XML job description files. The |
|
276 | must be run again to regenerate the XML job description files. The | |
279 | following screenshot shows what the HPC Job Manager interface looks like |
|
277 | following screenshot shows what the HPC Job Manager interface looks like | |
280 | with a running IPython cluster. |
|
278 | with a running IPython cluster. | |
281 |
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279 | |||
282 | .. image:: figs/hpc_job_manager.* |
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280 | .. image:: figs/hpc_job_manager.* | |
283 |
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281 | |||
284 | Performing a simple interactive parallel computation |
|
282 | Performing a simple interactive parallel computation | |
285 | ==================================================== |
|
283 | ==================================================== | |
286 |
|
284 | |||
287 | Once you have started your IPython cluster, you can start to use it. To do |
|
285 | Once you have started your IPython cluster, you can start to use it. To do | |
288 | this, open up a new Windows Command Prompt and start up IPython's interactive |
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286 | this, open up a new Windows Command Prompt and start up IPython's interactive | |
289 | shell by typing:: |
|
287 | shell by typing:: | |
290 |
|
288 | |||
291 | ipython |
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289 | ipython | |
292 |
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290 | |||
293 | Then you can create a :class:`MultiEngineClient` instance for your profile and |
|
291 | Then you can create a :class:`MultiEngineClient` instance for your profile and | |
294 | use the resulting instance to do a simple interactive parallel computation. In |
|
292 | use the resulting instance to do a simple interactive parallel computation. In | |
295 | the code and screenshot that follows, we take a simple Python function and |
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293 | the code and screenshot that follows, we take a simple Python function and | |
296 | apply it to each element of an array of integers in parallel using the |
|
294 | apply it to each element of an array of integers in parallel using the | |
297 | :meth:`MultiEngineClient.map` method: |
|
295 | :meth:`MultiEngineClient.map` method: | |
298 |
|
296 | |||
299 | .. sourcecode:: ipython |
|
297 | .. sourcecode:: ipython | |
300 |
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298 | |||
301 | In [1]: from IPython.parallel import * |
|
299 | In [1]: from IPython.parallel import * | |
302 |
|
300 | |||
303 | In [2]: c = MultiEngineClient(profile='mycluster') |
|
301 | In [2]: c = MultiEngineClient(profile='mycluster') | |
304 |
|
302 | |||
305 | In [3]: mec.get_ids() |
|
303 | In [3]: mec.get_ids() | |
306 | Out[3]: [0, 1, 2, 3, 4, 5, 67, 8, 9, 10, 11, 12, 13, 14] |
|
304 | Out[3]: [0, 1, 2, 3, 4, 5, 67, 8, 9, 10, 11, 12, 13, 14] | |
307 |
|
305 | |||
308 | In [4]: def f(x): |
|
306 | In [4]: def f(x): | |
309 | ...: return x**10 |
|
307 | ...: return x**10 | |
310 |
|
308 | |||
311 | In [5]: mec.map(f, range(15)) # f is applied in parallel |
|
309 | In [5]: mec.map(f, range(15)) # f is applied in parallel | |
312 | Out[5]: |
|
310 | Out[5]: | |
313 | [0, |
|
311 | [0, | |
314 | 1, |
|
312 | 1, | |
315 | 1024, |
|
313 | 1024, | |
316 | 59049, |
|
314 | 59049, | |
317 | 1048576, |
|
315 | 1048576, | |
318 | 9765625, |
|
316 | 9765625, | |
319 | 60466176, |
|
317 | 60466176, | |
320 | 282475249, |
|
318 | 282475249, | |
321 | 1073741824, |
|
319 | 1073741824, | |
322 | 3486784401L, |
|
320 | 3486784401L, | |
323 | 10000000000L, |
|
321 | 10000000000L, | |
324 | 25937424601L, |
|
322 | 25937424601L, | |
325 | 61917364224L, |
|
323 | 61917364224L, | |
326 | 137858491849L, |
|
324 | 137858491849L, | |
327 | 289254654976L] |
|
325 | 289254654976L] | |
328 |
|
326 | |||
329 | The :meth:`map` method has the same signature as Python's builtin :func:`map` |
|
327 | The :meth:`map` method has the same signature as Python's builtin :func:`map` | |
330 | function, but runs the calculation in parallel. More involved examples of using |
|
328 | function, but runs the calculation in parallel. More involved examples of using | |
331 | :class:`MultiEngineClient` are provided in the examples that follow. |
|
329 | :class:`MultiEngineClient` are provided in the examples that follow. | |
332 |
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330 | |||
333 | .. image:: figs/mec_simple.* |
|
331 | .. image:: figs/mec_simple.* | |
334 |
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332 |
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