neptune 0.1.4 → 0.2.0
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- data/README +4 -0
- data/bin/neptune +7 -0
- data/doc/AppControllerClient.html +113 -22
- data/doc/{Kernel.html → AppControllerException.html} +23 -55
- data/doc/BabelHelper.html +707 -0
- data/doc/BadConfigurationException.html +142 -0
- data/doc/CommonFunctions.html +121 -33
- data/doc/FileNotFoundException.html +142 -0
- data/doc/NeptuneHelper.html +1102 -0
- data/doc/Object.html +94 -749
- data/doc/bin/neptune.html +3 -1
- data/doc/created.rid +7 -5
- data/doc/index.html +73 -25
- data/doc/lib/app_controller_client_rb.html +1 -1
- data/doc/lib/babel_rb.html +68 -0
- data/doc/lib/common_functions_rb.html +3 -1
- data/doc/lib/custom_exceptions_rb.html +54 -0
- data/doc/lib/neptune_rb.html +3 -1
- data/lib/app_controller_client.rb +28 -10
- data/lib/babel.rb +260 -0
- data/lib/common_functions.rb +42 -28
- data/lib/custom_exceptions.rb +10 -0
- data/lib/neptune.rb +371 -304
- data/test/unit/test_app_controller_client.rb +9 -9
- data/test/unit/test_babel.rb +154 -0
- data/test/unit/test_common_functions.rb +39 -75
- data/test/unit/test_neptune.rb +168 -76
- data/test/unit/ts_all.rb +5 -0
- metadata +32 -8
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<li><a href="#method-c-compile_code">::compile_code</a></li>
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<li><a href="#method-c-do_preprocessing">::do_preprocessing</a></li>
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<h1 class="module">NeptuneHelper</h1>
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<a name="method-c-compile_code"></a>
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<span class="method-name">compile_code</span><span
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class="method-args">(job_data, ssh_args, shadow_ip)</span>
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<p>This method sends out a request to compile code, waits for it to finish,
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and gets the standard out and error returned from the compilation. This
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method returns a hash containing the standard out, error, and a result that
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indicates whether or not the compilation was successful.</p>
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id="compile_code-source">
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<pre>
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<span class="ruby-comment"># File lib/neptune.rb, line 369</span>
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def self.compile_code(job_data, ssh_args, shadow_ip)
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compiled_location = controller.compile_code(job_data)
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copy_to = job_data[<span class="ruby-string">"@copy_to"</span>]
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self.wait_for_compilation_to_finish(ssh_args, shadow_ip, compiled_location)
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scp_command = "scp -r #{ssh_args} root@#{shadow_ip}:#{compiled_location} #{copy_to} 2>&1"
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code = job_data[<span class="ruby-string">"@code"</span>]
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dirs = code.split(<span class="ruby-regexp">/\//</span>)
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remote_dir = <span class="ruby-string">"/tmp/"</span> + dirs[-1]
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[remote_dir, compiled_location].each { |remote_files|
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ssh_command = "ssh #{ssh_args} root@#{shadow_ip} 'rm -rf #{remote_files}' 2>&1"
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}
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return get_std_out_and_err(copy_to)
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end</pre>
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<a name="method-c-do_preprocessing"></a>
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<span class="method-name">do_preprocessing</span><span
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class="method-args">(job_data, controller)</span>
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<div class="method-description">
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<p>Certain types of jobs need steps to be taken before they can be started
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(e.g., copying input data or code over). This method dispatches the right
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method to use based on the type of the job that the user has asked to run.</p>
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<pre>
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<span class="ruby-comment"># File lib/neptune.rb, line 60</span>
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def self.do_preprocessing(job_data, controller)
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job_type = job_data[<span class="ruby-string">"@type"</span>]
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if !<span class="ruby-constant">NEED_PREPROCESSING</span>.include?(job_type)
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return
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end
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<span class="ruby-comment"># Don't worry about adding on the self. prefix - send will resolve</span>
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<span class="ruby-comment"># it the right way</span>
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preprocess = "preprocess_#{job_type}".to_sym
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send(preprocess, job_data, controller)
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end</pre>
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<div id="get_input-method" class="method-detail ">
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<a name="method-c-get_input"></a>
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<div class="method-heading">
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<span class="method-name">get_input</span><span
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class="method-args">(job_data, ssh_args, shadow_ip, controller)</span>
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<p>This method takes a file on the local user’s computer and stores it
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remotely via AppScale. It returns a hash map indicating whether or not the
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job succeeded and if it failed, the reason for it.</p>
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<pre>
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<span class="ruby-comment"># File lib/neptune.rb, line 319</span>
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def self.get_input(job_data, ssh_args, shadow_ip, controller)
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result = {:result => :success}
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self.require_param(<span class="ruby-string">"@local"</span>, job_data)
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end
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|
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remote = "/tmp/neptune-input-#{rand(100000)}"
|
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|
+
scp_cmd = "scp -r #{ssh_args} #{local_file} root@#{shadow_ip}:#{remote}"
|
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|
+
<span class="ruby-constant">Kernel</span>.puts scp_cmd
|
|
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|
+
<span class="ruby-constant">CommonFunctions</span>.shell(scp_cmd)
|
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|
+
|
|
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|
+
job_data[<span class="ruby-string">"@local"</span>] = remote
|
|
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|
+
<span class="ruby-constant">Kernel</span>.puts "job data = #{job_data.inspect}"
|
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|
+
response = controller.put_input(job_data)
|
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|
+
if response
|
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|
+
return {:result => :success}
|
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|
+
else
|
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|
+
<span class="ruby-comment"># TODO - expand this to include the reason why it failed</span>
|
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|
+
return {:result => :failure}
|
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|
+
end
|
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end</pre>
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</div>
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</div>
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</div>
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+
|
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<div id="get_job_data-method" class="method-detail ">
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<a name="method-c-get_job_data"></a>
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+
|
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+
|
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|
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<div class="method-heading">
|
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|
+
<span class="method-name">get_job_data</span><span
|
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|
+
class="method-args">(params)</span>
|
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<span class="method-click-advice">click to toggle source</span>
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</div>
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<div class="method-description">
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+
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|
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|
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<div class="method-source-code"
|
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|
+
id="get_job_data-source">
|
|
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|
+
<pre>
|
|
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|
+
<span class="ruby-comment"># File lib/neptune.rb, line 232</span>
|
|
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|
+
def self.get_job_data(params)
|
|
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|
+
job_data = {}
|
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|
+
params.each { |k, v|
|
|
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|
+
key = "@#{k}"
|
|
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|
+
job_data[key] = v
|
|
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|
+
}
|
|
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|
+
|
|
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|
+
job_data.delete(<span class="ruby-string">"@job"</span>)
|
|
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|
+
job_data[<span class="ruby-string">"@keyname"</span>] = params[:keyname] || <span class="ruby-string">"appscale"</span>
|
|
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|
+
|
|
361
|
+
job_data[<span class="ruby-string">"@type"</span>] = job_data[<span class="ruby-string">"@type"</span>].to_s
|
|
362
|
+
type = job_data[<span class="ruby-string">"@type"</span>]
|
|
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|
+
|
|
364
|
+
if !<span class="ruby-constant">ALLOWED_JOB_TYPES</span>.include?(type)
|
|
365
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-constant">JOB_TYPE_NOT_ALLOWED</span>)
|
|
366
|
+
end
|
|
367
|
+
|
|
368
|
+
if type == <span class="ruby-string">"upc"</span> or type == <span class="ruby-string">"x10"</span>
|
|
369
|
+
job_data[<span class="ruby-string">"@type"</span>] = <span class="ruby-string">"mpi"</span>
|
|
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|
+
type = <span class="ruby-string">"mpi"</span>
|
|
371
|
+
end
|
|
372
|
+
|
|
373
|
+
<span class="ruby-comment"># kdt jobs also run as mpi jobs, but need to pass along an executable</span>
|
|
374
|
+
<span class="ruby-comment"># parameter to let mpiexec know to use python to exec it</span>
|
|
375
|
+
if type == <span class="ruby-string">"kdt"</span>
|
|
376
|
+
job_data[<span class="ruby-string">"@type"</span>] = <span class="ruby-string">"mpi"</span>
|
|
377
|
+
type = <span class="ruby-string">"mpi"</span>
|
|
378
|
+
|
|
379
|
+
job_data[<span class="ruby-string">"@executable"</span>] = <span class="ruby-string">"python"</span>
|
|
380
|
+
end
|
|
381
|
+
|
|
382
|
+
if job_data[<span class="ruby-string">"@nodes_to_use"</span>].class == <span class="ruby-constant">Hash</span>
|
|
383
|
+
job_data[<span class="ruby-string">"@nodes_to_use"</span>] = job_data[<span class="ruby-string">"@nodes_to_use"</span>].to_a.flatten
|
|
384
|
+
end
|
|
385
|
+
|
|
386
|
+
if !<span class="ruby-constant">NO_OUTPUT_NEEDED</span>.include?(type)
|
|
387
|
+
if (job_data[<span class="ruby-string">"@output"</span>].nil? or job_data[<span class="ruby-string">"@output"</span>].empty?)
|
|
388
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">"Job output must be specified"</span>)
|
|
389
|
+
end
|
|
390
|
+
|
|
391
|
+
if job_data[<span class="ruby-string">"@output"</span>][0].chr != <span class="ruby-string">"/"</span>
|
|
392
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">"Job output must begin with a slash ('/')"</span>)
|
|
393
|
+
end
|
|
394
|
+
end
|
|
395
|
+
|
|
396
|
+
return job_data
|
|
397
|
+
end</pre>
|
|
398
|
+
</div>
|
|
399
|
+
|
|
400
|
+
</div>
|
|
401
|
+
|
|
402
|
+
|
|
403
|
+
|
|
404
|
+
|
|
405
|
+
</div>
|
|
406
|
+
|
|
407
|
+
|
|
408
|
+
<div id="get_std_out_and_err-method" class="method-detail ">
|
|
409
|
+
<a name="method-c-get_std_out_and_err"></a>
|
|
410
|
+
|
|
411
|
+
|
|
412
|
+
<div class="method-heading">
|
|
413
|
+
<span class="method-name">get_std_out_and_err</span><span
|
|
414
|
+
class="method-args">(location)</span>
|
|
415
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
416
|
+
</div>
|
|
417
|
+
|
|
418
|
+
|
|
419
|
+
<div class="method-description">
|
|
420
|
+
|
|
421
|
+
<p>This method returns a hash containing the standard out and standard error
|
|
422
|
+
from a completed job, as well as a result field that indicates whether or
|
|
423
|
+
not the job completed successfully (success = no errors).</p>
|
|
424
|
+
|
|
425
|
+
|
|
426
|
+
|
|
427
|
+
<div class="method-source-code"
|
|
428
|
+
id="get_std_out_and_err-source">
|
|
429
|
+
<pre>
|
|
430
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 396</span>
|
|
431
|
+
def self.get_std_out_and_err(location)
|
|
432
|
+
result = {}
|
|
433
|
+
|
|
434
|
+
out = <span class="ruby-constant">File</span>.open("#{location}/compile_out") { |f| f.read.chomp! }
|
|
435
|
+
result[:out] = out
|
|
436
|
+
|
|
437
|
+
err = <span class="ruby-constant">File</span>.open("#{location}/compile_err") { |f| f.read.chomp! }
|
|
438
|
+
result[:err] = err
|
|
439
|
+
|
|
440
|
+
if result[:err]
|
|
441
|
+
result[:result] = :failure
|
|
442
|
+
else
|
|
443
|
+
result[:result] = :success
|
|
444
|
+
end
|
|
445
|
+
|
|
446
|
+
return result
|
|
447
|
+
end</pre>
|
|
448
|
+
</div>
|
|
449
|
+
|
|
450
|
+
</div>
|
|
451
|
+
|
|
452
|
+
|
|
453
|
+
|
|
454
|
+
|
|
455
|
+
</div>
|
|
456
|
+
|
|
457
|
+
|
|
458
|
+
<div id="preprocess_babel-method" class="method-detail ">
|
|
459
|
+
<a name="method-c-preprocess_babel"></a>
|
|
460
|
+
|
|
461
|
+
|
|
462
|
+
<div class="method-heading">
|
|
463
|
+
<span class="method-name">preprocess_babel</span><span
|
|
464
|
+
class="method-args">(job_data, controller)</span>
|
|
465
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
466
|
+
</div>
|
|
467
|
+
|
|
468
|
+
|
|
469
|
+
<div class="method-description">
|
|
470
|
+
|
|
471
|
+
<p>This preprocessing method verifies that the user specified code that should
|
|
472
|
+
be run, where the output should be placed, and an engine to run over. It
|
|
473
|
+
also verifies that all files to be used are actually reachable. Supported
|
|
474
|
+
engines can be found by contacting an AppScale node.</p>
|
|
475
|
+
|
|
476
|
+
|
|
477
|
+
|
|
478
|
+
<div class="method-source-code"
|
|
479
|
+
id="preprocess_babel-source">
|
|
480
|
+
<pre>
|
|
481
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 188</span>
|
|
482
|
+
def self.preprocess_babel(job_data, controller)
|
|
483
|
+
self.require_param(<span class="ruby-string">"@code"</span>, job_data)
|
|
484
|
+
self.require_param(<span class="ruby-string">"@engine"</span>, job_data)
|
|
485
|
+
self.require_param(<span class="ruby-string">"@output"</span>, job_data)
|
|
486
|
+
|
|
487
|
+
<span class="ruby-comment"># For most code types, the file's name given is the thing to exec.</span>
|
|
488
|
+
<span class="ruby-comment"># For Java, the actual file to search for is whatever the user gives</span>
|
|
489
|
+
<span class="ruby-comment"># us, with a .class extension.</span>
|
|
490
|
+
code_file_name = job_data[<span class="ruby-string">"@code"</span>]
|
|
491
|
+
if !job_data[<span class="ruby-string">"@executable"</span>].nil? and job_data[<span class="ruby-string">"@executable"</span>] == <span class="ruby-string">"java"</span>
|
|
492
|
+
code_file_name += <span class="ruby-string">".class"</span>
|
|
493
|
+
end
|
|
494
|
+
|
|
495
|
+
self.require_file_to_exist(code_file_name, job_data, controller)
|
|
496
|
+
self.require_file_to_not_exist(job_data[<span class="ruby-string">"@output"</span>], job_data, controller)
|
|
497
|
+
|
|
498
|
+
if job_data[<span class="ruby-string">"@argv"</span>]
|
|
499
|
+
argv = job_data[<span class="ruby-string">"@argv"</span>]
|
|
500
|
+
if argv.class != <span class="ruby-constant">Array</span>
|
|
501
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">"argv must be an array"</span>)
|
|
502
|
+
end
|
|
503
|
+
|
|
504
|
+
argv.each { |arg|
|
|
505
|
+
if arg =~ <span class="ruby-regexp">/\/.*\/.*/</span>
|
|
506
|
+
self.require_file_to_exist(arg, job_data, controller)
|
|
507
|
+
end
|
|
508
|
+
}
|
|
509
|
+
end
|
|
510
|
+
|
|
511
|
+
if job_data[<span class="ruby-string">"@appcfg_cookies"</span>]
|
|
512
|
+
self.require_file_to_exist(job_data[<span class="ruby-string">"@appcfg_cookies"</span>], job_data, controller)
|
|
513
|
+
end
|
|
514
|
+
|
|
515
|
+
user_specified_engine = job_data[<span class="ruby-string">"@engine"</span>]
|
|
516
|
+
|
|
517
|
+
<span class="ruby-comment"># validate the engine here</span>
|
|
518
|
+
engines = controller.get_supported_babel_engines(job_data)
|
|
519
|
+
if !engines.include?(user_specified_engine)
|
|
520
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">"The engine you specified, "</span> +
|
|
521
|
+
"#{user_specified_engine}, is not a supported engine. Supported engines" +
|
|
522
|
+
" are: #{engines.join(', ')}")
|
|
523
|
+
end
|
|
524
|
+
end</pre>
|
|
525
|
+
</div>
|
|
526
|
+
|
|
527
|
+
</div>
|
|
528
|
+
|
|
529
|
+
|
|
530
|
+
|
|
531
|
+
|
|
532
|
+
</div>
|
|
533
|
+
|
|
534
|
+
|
|
535
|
+
<div id="preprocess_compile-method" class="method-detail ">
|
|
536
|
+
<a name="method-c-preprocess_compile"></a>
|
|
537
|
+
|
|
538
|
+
|
|
539
|
+
<div class="method-heading">
|
|
540
|
+
<span class="method-name">preprocess_compile</span><span
|
|
541
|
+
class="method-args">(job_data, controller)</span>
|
|
542
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
543
|
+
</div>
|
|
544
|
+
|
|
545
|
+
|
|
546
|
+
<div class="method-description">
|
|
547
|
+
|
|
548
|
+
<p>This preprocessing method copies over the user’s code to the Shadow node
|
|
549
|
+
so that it can be compiled there. A future version of this method may also
|
|
550
|
+
copy over libraries as well.</p>
|
|
551
|
+
|
|
552
|
+
|
|
553
|
+
|
|
554
|
+
<div class="method-source-code"
|
|
555
|
+
id="preprocess_compile-source">
|
|
556
|
+
<pre>
|
|
557
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 75</span>
|
|
558
|
+
def self.preprocess_compile(job_data, controller)
|
|
559
|
+
code = <span class="ruby-constant">File</span>.expand_path(job_data[<span class="ruby-string">"@code"</span>])
|
|
560
|
+
if !<span class="ruby-constant">File</span>.exists?(code)
|
|
561
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new("The source file #{code} does not exist.")
|
|
562
|
+
end
|
|
563
|
+
|
|
564
|
+
suffix = code.split(<span class="ruby-string">'/'</span>)[-1]
|
|
565
|
+
dest = "/tmp/#{suffix}"
|
|
566
|
+
keyname = job_data[<span class="ruby-string">"@keyname"</span>]
|
|
567
|
+
shadow_ip = <span class="ruby-constant">CommonFunctions</span>.get_from_yaml(keyname, :shadow)
|
|
568
|
+
|
|
569
|
+
ssh_args = "-i ~/.appscale/#{keyname}.key -o StrictHostkeyChecking=no root@#{shadow_ip}"
|
|
570
|
+
remove_dir = "ssh #{ssh_args} 'rm -rf #{dest}' 2>&1"
|
|
571
|
+
<span class="ruby-constant">Kernel</span>.puts remove_dir
|
|
572
|
+
<span class="ruby-constant">CommonFunctions</span>.shell(remove_dir)
|
|
573
|
+
<span class="ruby-constant">CommonFunctions</span>.scp_to_shadow(code, dest, keyname, is_dir=true)
|
|
574
|
+
|
|
575
|
+
job_data[<span class="ruby-string">"@code"</span>] = dest
|
|
576
|
+
end</pre>
|
|
577
|
+
</div>
|
|
578
|
+
|
|
579
|
+
</div>
|
|
580
|
+
|
|
581
|
+
|
|
582
|
+
|
|
583
|
+
|
|
584
|
+
</div>
|
|
585
|
+
|
|
586
|
+
|
|
587
|
+
<div id="preprocess_erlang-method" class="method-detail ">
|
|
588
|
+
<a name="method-c-preprocess_erlang"></a>
|
|
589
|
+
|
|
590
|
+
|
|
591
|
+
<div class="method-heading">
|
|
592
|
+
<span class="method-name">preprocess_erlang</span><span
|
|
593
|
+
class="method-args">(job_data, controller)</span>
|
|
594
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
595
|
+
</div>
|
|
596
|
+
|
|
597
|
+
|
|
598
|
+
<div class="method-description">
|
|
599
|
+
|
|
600
|
+
|
|
601
|
+
|
|
602
|
+
|
|
603
|
+
|
|
604
|
+
<div class="method-source-code"
|
|
605
|
+
id="preprocess_erlang-source">
|
|
606
|
+
<pre>
|
|
607
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 95</span>
|
|
608
|
+
def self.preprocess_erlang(job_data, controller)
|
|
609
|
+
self.require_param(<span class="ruby-string">"@code"</span>, job_data)
|
|
610
|
+
|
|
611
|
+
source_code = <span class="ruby-constant">File</span>.expand_path(job_data[<span class="ruby-string">"@code"</span>])
|
|
612
|
+
if !<span class="ruby-constant">File</span>.exists?(source_code)
|
|
613
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new("The specified code, #{job_data['@code']}," +
|
|
614
|
+
<span class="ruby-string">" didn't exist. Please specify one that exists and try again"</span>)
|
|
615
|
+
end
|
|
616
|
+
dest_code = <span class="ruby-string">"/tmp/"</span>
|
|
617
|
+
|
|
618
|
+
keyname = job_data[<span class="ruby-string">"@keyname"</span>]
|
|
619
|
+
<span class="ruby-constant">CommonFunctions</span>.scp_to_shadow(source_code, dest_code, keyname)
|
|
620
|
+
end</pre>
|
|
621
|
+
</div>
|
|
622
|
+
|
|
623
|
+
</div>
|
|
624
|
+
|
|
625
|
+
|
|
626
|
+
|
|
627
|
+
|
|
628
|
+
</div>
|
|
629
|
+
|
|
630
|
+
|
|
631
|
+
<div id="preprocess_mpi-method" class="method-detail ">
|
|
632
|
+
<a name="method-c-preprocess_mpi"></a>
|
|
633
|
+
|
|
634
|
+
|
|
635
|
+
<div class="method-heading">
|
|
636
|
+
<span class="method-name">preprocess_mpi</span><span
|
|
637
|
+
class="method-args">(job_data, controller)</span>
|
|
638
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
639
|
+
</div>
|
|
640
|
+
|
|
641
|
+
|
|
642
|
+
<div class="method-description">
|
|
643
|
+
|
|
644
|
+
<p>This preprocessing method verifies that the user specified the number of
|
|
645
|
+
nodes to use. If they also specified the number of processes to use, we
|
|
646
|
+
also verify that this value is at least as many as the number of nodes
|
|
647
|
+
(that is, nodes can’t be underprovisioned in MPI).</p>
|
|
648
|
+
|
|
649
|
+
|
|
650
|
+
|
|
651
|
+
<div class="method-source-code"
|
|
652
|
+
id="preprocess_mpi-source">
|
|
653
|
+
<pre>
|
|
654
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 113</span>
|
|
655
|
+
def self.preprocess_mpi(job_data, controller)
|
|
656
|
+
self.require_param(<span class="ruby-string">"@nodes_to_use"</span>, job_data)
|
|
657
|
+
self.require_param(<span class="ruby-string">"@procs_to_use"</span>, job_data)
|
|
658
|
+
|
|
659
|
+
if job_data[<span class="ruby-string">"@procs_to_use"</span>]
|
|
660
|
+
p = job_data[<span class="ruby-string">"@procs_to_use"</span>]
|
|
661
|
+
n = job_data[<span class="ruby-string">"@nodes_to_use"</span>]
|
|
662
|
+
if p < n
|
|
663
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">":procs_to_use must be at least as "</span> +
|
|
664
|
+
<span class="ruby-string">"large as :nodes_to_use."</span>)
|
|
665
|
+
end
|
|
666
|
+
end
|
|
667
|
+
|
|
668
|
+
if job_data[<span class="ruby-string">"@argv"</span>]
|
|
669
|
+
argv = job_data[<span class="ruby-string">"@argv"</span>]
|
|
670
|
+
|
|
671
|
+
if argv.class == <span class="ruby-constant">String</span>
|
|
672
|
+
job_data[<span class="ruby-string">"@argv"</span>] = argv
|
|
673
|
+
elsif argv.class == <span class="ruby-constant">Array</span>
|
|
674
|
+
job_data[<span class="ruby-string">"@argv"</span>] = argv.join(<span class="ruby-string">' '</span>)
|
|
675
|
+
else
|
|
676
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">":argv must be either a String or Array"</span>)
|
|
677
|
+
end
|
|
678
|
+
end
|
|
679
|
+
|
|
680
|
+
return job_data
|
|
681
|
+
end</pre>
|
|
682
|
+
</div>
|
|
683
|
+
|
|
684
|
+
</div>
|
|
685
|
+
|
|
686
|
+
|
|
687
|
+
|
|
688
|
+
|
|
689
|
+
</div>
|
|
690
|
+
|
|
691
|
+
|
|
692
|
+
<div id="preprocess_ssa-method" class="method-detail ">
|
|
693
|
+
<a name="method-c-preprocess_ssa"></a>
|
|
694
|
+
|
|
695
|
+
|
|
696
|
+
<div class="method-heading">
|
|
697
|
+
<span class="method-name">preprocess_ssa</span><span
|
|
698
|
+
class="method-args">(job_data, controller)</span>
|
|
699
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
700
|
+
</div>
|
|
701
|
+
|
|
702
|
+
|
|
703
|
+
<div class="method-description">
|
|
704
|
+
|
|
705
|
+
<p>This preprocessing method verifies that the user specified the number of
|
|
706
|
+
trajectories to run, via either :trajectories or :simulations. Both should
|
|
707
|
+
not be specified - only one or the other, and regardless of which they
|
|
708
|
+
specify, convert it to be :trajectories.</p>
|
|
709
|
+
|
|
710
|
+
|
|
711
|
+
|
|
712
|
+
<div class="method-source-code"
|
|
713
|
+
id="preprocess_ssa-source">
|
|
714
|
+
<pre>
|
|
715
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 145</span>
|
|
716
|
+
def self.preprocess_ssa(job_data, controller)
|
|
717
|
+
if job_data[<span class="ruby-string">"@simulations"</span>] and job_data[<span class="ruby-string">"@trajectories"</span>]
|
|
718
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">":simulations and :trajectories "</span> +
|
|
719
|
+
<span class="ruby-string">"not both be specified."</span>)
|
|
720
|
+
end
|
|
721
|
+
|
|
722
|
+
if job_data[<span class="ruby-string">"@simulations"</span>]
|
|
723
|
+
job_data[<span class="ruby-string">"@trajectories"</span>] = job_data[<span class="ruby-string">"@simulations"</span>]
|
|
724
|
+
job_data.delete(<span class="ruby-string">"@simulations"</span>)
|
|
725
|
+
end
|
|
726
|
+
|
|
727
|
+
self.require_param(<span class="ruby-string">"@trajectories"</span>, job_data)
|
|
728
|
+
return job_data
|
|
729
|
+
end</pre>
|
|
730
|
+
</div>
|
|
731
|
+
|
|
732
|
+
</div>
|
|
733
|
+
|
|
734
|
+
|
|
735
|
+
|
|
736
|
+
|
|
737
|
+
</div>
|
|
738
|
+
|
|
739
|
+
|
|
740
|
+
<div id="require_file_to_exist-method" class="method-detail ">
|
|
741
|
+
<a name="method-c-require_file_to_exist"></a>
|
|
742
|
+
|
|
743
|
+
|
|
744
|
+
<div class="method-heading">
|
|
745
|
+
<span class="method-name">require_file_to_exist</span><span
|
|
746
|
+
class="method-args">(file, job_data, controller)</span>
|
|
747
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
748
|
+
</div>
|
|
749
|
+
|
|
750
|
+
|
|
751
|
+
<div class="method-description">
|
|
752
|
+
|
|
753
|
+
|
|
754
|
+
|
|
755
|
+
|
|
756
|
+
|
|
757
|
+
<div class="method-source-code"
|
|
758
|
+
id="require_file_to_exist-source">
|
|
759
|
+
<pre>
|
|
760
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 166</span>
|
|
761
|
+
def self.require_file_to_exist(file, job_data, controller)
|
|
762
|
+
if controller.does_file_exist?(file, job_data)
|
|
763
|
+
return
|
|
764
|
+
else
|
|
765
|
+
raise <span class="ruby-constant">FileNotFoundException</span>
|
|
766
|
+
end
|
|
767
|
+
end</pre>
|
|
768
|
+
</div>
|
|
769
|
+
|
|
770
|
+
</div>
|
|
771
|
+
|
|
772
|
+
|
|
773
|
+
|
|
774
|
+
|
|
775
|
+
</div>
|
|
776
|
+
|
|
777
|
+
|
|
778
|
+
<div id="require_file_to_not_exist-method" class="method-detail ">
|
|
779
|
+
<a name="method-c-require_file_to_not_exist"></a>
|
|
780
|
+
|
|
781
|
+
|
|
782
|
+
<div class="method-heading">
|
|
783
|
+
<span class="method-name">require_file_to_not_exist</span><span
|
|
784
|
+
class="method-args">(file, job_data, controller)</span>
|
|
785
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
786
|
+
</div>
|
|
787
|
+
|
|
788
|
+
|
|
789
|
+
<div class="method-description">
|
|
790
|
+
|
|
791
|
+
|
|
792
|
+
|
|
793
|
+
|
|
794
|
+
|
|
795
|
+
<div class="method-source-code"
|
|
796
|
+
id="require_file_to_not_exist-source">
|
|
797
|
+
<pre>
|
|
798
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 174</span>
|
|
799
|
+
def self.require_file_to_not_exist(file, job_data, controller)
|
|
800
|
+
begin
|
|
801
|
+
self.require_file_to_exist(file, job_data, controller)
|
|
802
|
+
<span class="ruby-comment"># no exception thrown previously means that the output file exists</span>
|
|
803
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">'Output specified already exists'</span>)
|
|
804
|
+
rescue <span class="ruby-constant">FileNotFoundException</span>
|
|
805
|
+
return
|
|
806
|
+
end
|
|
807
|
+
end</pre>
|
|
808
|
+
</div>
|
|
809
|
+
|
|
810
|
+
</div>
|
|
811
|
+
|
|
812
|
+
|
|
813
|
+
|
|
814
|
+
|
|
815
|
+
</div>
|
|
816
|
+
|
|
817
|
+
|
|
818
|
+
<div id="require_param-method" class="method-detail ">
|
|
819
|
+
<a name="method-c-require_param"></a>
|
|
820
|
+
|
|
821
|
+
|
|
822
|
+
<div class="method-heading">
|
|
823
|
+
<span class="method-name">require_param</span><span
|
|
824
|
+
class="method-args">(param, job_data)</span>
|
|
825
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
826
|
+
</div>
|
|
827
|
+
|
|
828
|
+
|
|
829
|
+
<div class="method-description">
|
|
830
|
+
|
|
831
|
+
|
|
832
|
+
|
|
833
|
+
|
|
834
|
+
|
|
835
|
+
<div class="method-source-code"
|
|
836
|
+
id="require_param-source">
|
|
837
|
+
<pre>
|
|
838
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 160</span>
|
|
839
|
+
def self.require_param(param, job_data)
|
|
840
|
+
if !job_data[param]
|
|
841
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new("#{param} must be specified")
|
|
842
|
+
end
|
|
843
|
+
end</pre>
|
|
844
|
+
</div>
|
|
845
|
+
|
|
846
|
+
</div>
|
|
847
|
+
|
|
848
|
+
|
|
849
|
+
|
|
850
|
+
|
|
851
|
+
</div>
|
|
852
|
+
|
|
853
|
+
|
|
854
|
+
<div id="run_job-method" class="method-detail ">
|
|
855
|
+
<a name="method-c-run_job"></a>
|
|
856
|
+
|
|
857
|
+
|
|
858
|
+
<div class="method-heading">
|
|
859
|
+
<span class="method-name">run_job</span><span
|
|
860
|
+
class="method-args">(job_data, ssh_args, shadow_ip, secret)</span>
|
|
861
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
862
|
+
</div>
|
|
863
|
+
|
|
864
|
+
|
|
865
|
+
<div class="method-description">
|
|
866
|
+
|
|
867
|
+
<p>This method actually runs the Neptune job, given information about the job
|
|
868
|
+
as well as information about the node to send the request to.</p>
|
|
869
|
+
|
|
870
|
+
|
|
871
|
+
|
|
872
|
+
<div class="method-source-code"
|
|
873
|
+
id="run_job-source">
|
|
874
|
+
<pre>
|
|
875
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 442</span>
|
|
876
|
+
def self.run_job(job_data, ssh_args, shadow_ip, secret)
|
|
877
|
+
controller = <span class="ruby-constant">AppControllerClient</span>.new(shadow_ip, secret)
|
|
878
|
+
|
|
879
|
+
<span class="ruby-comment"># TODO - right now the job is assumed to succeed in many cases</span>
|
|
880
|
+
<span class="ruby-comment"># need to investigate the various failure scenarios</span>
|
|
881
|
+
result = { :result => :success }
|
|
882
|
+
|
|
883
|
+
case job_data[<span class="ruby-string">"@type"</span>]
|
|
884
|
+
when <span class="ruby-string">"input"</span>
|
|
885
|
+
result = self.get_input(job_data, ssh_args, shadow_ip, controller)
|
|
886
|
+
when <span class="ruby-string">"output"</span>
|
|
887
|
+
result[:output] = controller.get_output(job_data)
|
|
888
|
+
when <span class="ruby-string">"get-acl"</span>
|
|
889
|
+
job_data[<span class="ruby-string">"@type"</span>] = <span class="ruby-string">"acl"</span>
|
|
890
|
+
result[:acl] = controller.get_acl(job_data)
|
|
891
|
+
when <span class="ruby-string">"set-acl"</span>
|
|
892
|
+
job_data[<span class="ruby-string">"@type"</span>] = <span class="ruby-string">"acl"</span>
|
|
893
|
+
result[:acl] = controller.set_acl(job_data)
|
|
894
|
+
when <span class="ruby-string">"compile"</span>
|
|
895
|
+
result = self.compile_code(job_data, ssh_args, shadow_ip)
|
|
896
|
+
when <span class="ruby-string">"cicero"</span>
|
|
897
|
+
self.upload_app_for_cicero(job_data)
|
|
898
|
+
msg = controller.start_neptune_job(job_data)
|
|
899
|
+
result[:msg] = msg
|
|
900
|
+
result[:result] = :failure if result[:msg] !~ <span class="ruby-regexp">/job is now running\Z/</span>
|
|
901
|
+
else
|
|
902
|
+
msg = controller.start_neptune_job(job_data)
|
|
903
|
+
result[:msg] = msg
|
|
904
|
+
result[:result] = :failure if result[:msg] !~ <span class="ruby-regexp">/job is now running\Z/</span>
|
|
905
|
+
end
|
|
906
|
+
|
|
907
|
+
return result
|
|
908
|
+
end</pre>
|
|
909
|
+
</div>
|
|
910
|
+
|
|
911
|
+
</div>
|
|
912
|
+
|
|
913
|
+
|
|
914
|
+
|
|
915
|
+
|
|
916
|
+
</div>
|
|
917
|
+
|
|
918
|
+
|
|
919
|
+
<div id="upload_app_for_cicero-method" class="method-detail ">
|
|
920
|
+
<a name="method-c-upload_app_for_cicero"></a>
|
|
921
|
+
|
|
922
|
+
|
|
923
|
+
<div class="method-heading">
|
|
924
|
+
<span class="method-name">upload_app_for_cicero</span><span
|
|
925
|
+
class="method-args">(job_data)</span>
|
|
926
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
927
|
+
</div>
|
|
928
|
+
|
|
929
|
+
|
|
930
|
+
<div class="method-description">
|
|
931
|
+
|
|
932
|
+
|
|
933
|
+
|
|
934
|
+
|
|
935
|
+
|
|
936
|
+
<div class="method-source-code"
|
|
937
|
+
id="upload_app_for_cicero-source">
|
|
938
|
+
<pre>
|
|
939
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 414</span>
|
|
940
|
+
def self.upload_app_for_cicero(job_data)
|
|
941
|
+
if !job_data[<span class="ruby-string">"@app"</span>]
|
|
942
|
+
<span class="ruby-constant">Kernel</span>.puts <span class="ruby-string">"No app specified, not uploading..."</span>
|
|
943
|
+
return
|
|
944
|
+
end
|
|
945
|
+
|
|
946
|
+
app_location = <span class="ruby-constant">File</span>.expand_path(job_data[<span class="ruby-string">"@app"</span>])
|
|
947
|
+
if !<span class="ruby-constant">File</span>.exists?(app_location)
|
|
948
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new("The app you specified, #{app_location}, does not exist." +
|
|
949
|
+
<span class="ruby-string">"Please specify one that does and try again."</span>)
|
|
950
|
+
end
|
|
951
|
+
|
|
952
|
+
keyname = job_data[<span class="ruby-string">"@keyname"</span>] || <span class="ruby-string">"appscale"</span>
|
|
953
|
+
if job_data[<span class="ruby-string">"@appscale_tools"</span>]
|
|
954
|
+
upload_app = <span class="ruby-constant">File</span>.expand_path(job_data[<span class="ruby-string">"@appscale_tools"</span>]) +
|
|
955
|
+
<span class="ruby-constant">File</span>::<span class="ruby-constant">SEPARATOR</span> + <span class="ruby-string">"bin"</span> + <span class="ruby-constant">File</span>::<span class="ruby-constant">SEPARATOR</span> + <span class="ruby-string">"appscale-upload-app"</span>
|
|
956
|
+
else
|
|
957
|
+
upload_app = <span class="ruby-string">"appscale-upload-app"</span>
|
|
958
|
+
end
|
|
959
|
+
|
|
960
|
+
<span class="ruby-constant">Kernel</span>.puts "Uploading AppEngine app at #{app_location}"
|
|
961
|
+
upload_command = "#{upload_app} --file #{app_location} --test --keyname #{keyname}"
|
|
962
|
+
<span class="ruby-constant">Kernel</span>.puts upload_command
|
|
963
|
+
<span class="ruby-constant">Kernel</span>.puts `#{upload_command}`
|
|
964
|
+
end</pre>
|
|
965
|
+
</div>
|
|
966
|
+
|
|
967
|
+
</div>
|
|
968
|
+
|
|
969
|
+
|
|
970
|
+
|
|
971
|
+
|
|
972
|
+
</div>
|
|
973
|
+
|
|
974
|
+
|
|
975
|
+
<div id="validate_storage_params-method" class="method-detail ">
|
|
976
|
+
<a name="method-c-validate_storage_params"></a>
|
|
977
|
+
|
|
978
|
+
|
|
979
|
+
<div class="method-heading">
|
|
980
|
+
<span class="method-name">validate_storage_params</span><span
|
|
981
|
+
class="method-args">(job_data)</span>
|
|
982
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
983
|
+
</div>
|
|
984
|
+
|
|
985
|
+
|
|
986
|
+
<div class="method-description">
|
|
987
|
+
|
|
988
|
+
|
|
989
|
+
|
|
990
|
+
|
|
991
|
+
|
|
992
|
+
<div class="method-source-code"
|
|
993
|
+
id="validate_storage_params-source">
|
|
994
|
+
<pre>
|
|
995
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 280</span>
|
|
996
|
+
def self.validate_storage_params(job_data)
|
|
997
|
+
job_data[<span class="ruby-string">"@storage"</span>] ||= <span class="ruby-string">"appdb"</span>
|
|
998
|
+
|
|
999
|
+
storage = job_data[<span class="ruby-string">"@storage"</span>]
|
|
1000
|
+
if !<span class="ruby-constant">ALLOWED_STORAGE_TYPES</span>.include?(storage)
|
|
1001
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new(<span class="ruby-string">"Supported storage types are "</span> +
|
|
1002
|
+
"#{ALLOWED_STORAGE_TYPES.join(', ')} - #{storage} is not supported.")
|
|
1003
|
+
end
|
|
1004
|
+
|
|
1005
|
+
<span class="ruby-comment"># Our implementation for storing / retrieving via Google Storage</span>
|
|
1006
|
+
<span class="ruby-comment"># and Walrus uses</span>
|
|
1007
|
+
<span class="ruby-comment"># the same library as we do for S3 - so just tell it that it's S3</span>
|
|
1008
|
+
if storage == <span class="ruby-string">"gstorage"</span> or storage == <span class="ruby-string">"walrus"</span>
|
|
1009
|
+
storage = <span class="ruby-string">"s3"</span>
|
|
1010
|
+
job_data[<span class="ruby-string">"@storage"</span>] = <span class="ruby-string">"s3"</span>
|
|
1011
|
+
end
|
|
1012
|
+
|
|
1013
|
+
if storage == <span class="ruby-string">"s3"</span>
|
|
1014
|
+
[<span class="ruby-string">"EC2_ACCESS_KEY"</span>, <span class="ruby-string">"EC2_SECRET_KEY"</span>, <span class="ruby-string">"S3_URL"</span>].each { |item|
|
|
1015
|
+
if job_data["@#{item}"]
|
|
1016
|
+
<span class="ruby-constant">Kernel</span>.puts "Using specified #{item}"
|
|
1017
|
+
else
|
|
1018
|
+
if <span class="ruby-constant">ENV</span>[item]
|
|
1019
|
+
<span class="ruby-constant">Kernel</span>.puts "Using #{item} from environment"
|
|
1020
|
+
job_data["@#{item}"] = <span class="ruby-constant">ENV</span>[item]
|
|
1021
|
+
else
|
|
1022
|
+
raise <span class="ruby-constant">BadConfigurationException</span>.new("When storing data to S3, #{item} must be specified or be in " +
|
|
1023
|
+
<span class="ruby-string">"your environment. Please do so and try again."</span>)
|
|
1024
|
+
end
|
|
1025
|
+
end
|
|
1026
|
+
}
|
|
1027
|
+
end
|
|
1028
|
+
|
|
1029
|
+
return job_data
|
|
1030
|
+
end</pre>
|
|
1031
|
+
</div>
|
|
1032
|
+
|
|
1033
|
+
</div>
|
|
1034
|
+
|
|
1035
|
+
|
|
1036
|
+
|
|
1037
|
+
|
|
1038
|
+
</div>
|
|
1039
|
+
|
|
1040
|
+
|
|
1041
|
+
<div id="wait_for_compilation_to_finish-method" class="method-detail ">
|
|
1042
|
+
<a name="method-c-wait_for_compilation_to_finish"></a>
|
|
1043
|
+
|
|
1044
|
+
|
|
1045
|
+
<div class="method-heading">
|
|
1046
|
+
<span class="method-name">wait_for_compilation_to_finish</span><span
|
|
1047
|
+
class="method-args">(ssh_args, shadow_ip, compiled_location)</span>
|
|
1048
|
+
<span class="method-click-advice">click to toggle source</span>
|
|
1049
|
+
</div>
|
|
1050
|
+
|
|
1051
|
+
|
|
1052
|
+
<div class="method-description">
|
|
1053
|
+
|
|
1054
|
+
<p>This method waits for AppScale to finish compiling the user’s code,
|
|
1055
|
+
indicated by AppScale copying the finished code to a pre-determined
|
|
1056
|
+
location.</p>
|
|
1057
|
+
|
|
1058
|
+
|
|
1059
|
+
|
|
1060
|
+
<div class="method-source-code"
|
|
1061
|
+
id="wait_for_compilation_to_finish-source">
|
|
1062
|
+
<pre>
|
|
1063
|
+
<span class="ruby-comment"># File lib/neptune.rb, line 349</span>
|
|
1064
|
+
def self.wait_for_compilation_to_finish(ssh_args, shadow_ip, compiled_location)
|
|
1065
|
+
loop {
|
|
1066
|
+
ssh_command = "ssh #{ssh_args} root@#{shadow_ip} 'ls #{compiled_location}' 2>&1"
|
|
1067
|
+
<span class="ruby-constant">Kernel</span>.puts ssh_command
|
|
1068
|
+
ssh_result = <span class="ruby-constant">CommonFunctions</span>.shell(ssh_command)
|
|
1069
|
+
<span class="ruby-constant">Kernel</span>.puts "result was [#{ssh_result}]"
|
|
1070
|
+
if ssh_result =~ <span class="ruby-regexp">/No such file or directory/</span>
|
|
1071
|
+
<span class="ruby-constant">Kernel</span>.puts <span class="ruby-string">"Still waiting for code to be compiled..."</span>
|
|
1072
|
+
else
|
|
1073
|
+
<span class="ruby-constant">Kernel</span>.puts "compilation complete! Copying compiled code to #{copy_to}"
|
|
1074
|
+
return
|
|
1075
|
+
end
|
|
1076
|
+
sleep(5)
|
|
1077
|
+
}
|
|
1078
|
+
end</pre>
|
|
1079
|
+
</div>
|
|
1080
|
+
|
|
1081
|
+
</div>
|
|
1082
|
+
|
|
1083
|
+
|
|
1084
|
+
|
|
1085
|
+
|
|
1086
|
+
</div>
|
|
1087
|
+
|
|
1088
|
+
|
|
1089
|
+
</div>
|
|
1090
|
+
|
|
1091
|
+
|
|
1092
|
+
</div>
|
|
1093
|
+
|
|
1094
|
+
<div id="validator-badges">
|
|
1095
|
+
<p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
|
|
1096
|
+
<p><small>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish
|
|
1097
|
+
Rdoc Generator</a> 2</small>.</p>
|
|
1098
|
+
</div>
|
|
1099
|
+
|
|
1100
|
+
</body>
|
|
1101
|
+
</html>
|
|
1102
|
+
|