sge 0.0.2 → 0.0.3

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@@ -12,31 +12,33 @@ module SGE
12
12
  end
13
13
  end
14
14
 
15
- def self.load_documents(opts,&block)
15
+ def self.load_documents(opts)
16
16
  documents = []
17
17
  transformer = SGE::QAcct::Transformer.new
18
-
18
+
19
19
  # Compute command
20
20
  cmd = command(opts)
21
-
21
+
22
22
  # Make a fifo to dump
23
23
  fifo = opts[:file] || SGE::Utils.mkfifo(opts[:tmp_dir])
24
-
24
+
25
25
  # Add transformer to yaml command
26
26
  cmd = transformer.command(opts.merge(:cmd => cmd, :file => fifo))
27
-
27
+
28
28
  # Execute this command
29
- execute(cmd)
30
-
29
+ SGE::Utils.execute(cmd)
30
+
31
31
  # Load documents
32
32
  if block_given?
33
- transformer.load_from_yaml_file(fifo, opts[:remove_tmp_file], &block)
33
+ transformer.load_from_yaml_file(fifo, opts[:remove_tmp_file]) do |doc|
34
+ documents << yield(doc)
35
+ end
34
36
  else
35
37
  transformer.load_from_yaml_file(fifo, opts[:remove_tmp_file]) do |doc|
36
38
  documents << doc
37
39
  end
38
- documents
39
40
  end
41
+ documents
40
42
  end
41
43
 
42
44
  def self.command(opts)
@@ -44,11 +46,6 @@ module SGE
44
46
  raise "Not Implemented Yet"
45
47
  end
46
48
 
47
- def self.execute(cmd)
48
- # The same as `#{cmd}`
49
- Kernel.system(cmd)
50
- end
51
-
52
49
  end
53
50
  end
54
51
  end
@@ -5,10 +5,9 @@ module SGE
5
5
 
6
6
  def load_from_yaml_file(yaml_file, remove_file = false,&block)
7
7
  raise "A block must be given" unless block_given?
8
- File.open(yaml_file,"r") do |file|
8
+ SGE::Utils.read_file(yaml_file,remove_file) do |file|
9
9
  YAML.load_documents(file,&block)
10
10
  end
11
- File.unlink(yaml_file) if remove_file
12
11
  end
13
12
 
14
13
  def transformer_file
@@ -11,6 +11,46 @@ module SGE
11
11
  :JB_submission_time => :submission_time,
12
12
  :state => :state
13
13
  )
14
+
15
+ def self.load_documents(opts,&block)
16
+ documents = []
17
+
18
+ # Make a fifo to dump file
19
+ fifo = opts[:file] || SGE::Utils.mkfifo(opts[:tmp_dir])
20
+
21
+ # Compute command
22
+ cmd = command(opts.merge(:fifo => fifo))
23
+
24
+ # Execute this command
25
+ SGE::Utils.execute(cmd)
26
+
27
+ # We need a XML parser
28
+
29
+ # Read file from fifo and instantiate jobs
30
+ SGE::Utils.read_file(fifo, true) do |file|
31
+ # Parse the file
32
+ doc = SGE::QStat::Parser.parse(file)
33
+ # Loop through the jobs found
34
+ doc.jobs.each do |j|
35
+ if block_given?
36
+ documents << yield(self.from_document(j))
37
+ else
38
+ documents << self.from_document(j)
39
+ end
40
+ end
41
+ end
42
+ documents
43
+ end
44
+
45
+ def self.command(opts)
46
+ if opts[:cmd]
47
+ opts[:cmd]
48
+ else
49
+ file = opts[:sample] || File.expand_path('../../../../spec/data/qstat.sge',__FILE__)
50
+ "cat #{file} > #{opts[:fifo]} &"
51
+ end
52
+ end
53
+
14
54
  end
15
55
  end
16
56
  end
@@ -8,5 +8,17 @@ module SGE
8
8
  tmp_pipe
9
9
  end
10
10
 
11
+ def execute(cmd)
12
+ # The same as `#{cmd}`
13
+ Kernel.system(cmd)
14
+ end
15
+
16
+ def read_file(filename, remove_file = false)
17
+ File.open(filename,"r") do |file|
18
+ yield(file)
19
+ end
20
+ File.unlink(filename) if remove_file
21
+ end
22
+
11
23
  end
12
- end
24
+ end
@@ -1,3 +1,3 @@
1
1
  module SGE
2
- VERSION = "0.0.2"
2
+ VERSION = "0.0.3"
3
3
  end
@@ -0,0 +1,1592 @@
1
+ ==============================================================
2
+ qname bdd-calcul-x.q
3
+ hostname compute-5.cloud.weborama.fr
4
+ group prodsoft
5
+ owner prodsoft
6
+ project WOUSDAT
7
+ department defaultdepartment
8
+ jobname s20110227_23;init_jour;17
9
+ jobnumber 598013
10
+ taskid undefined
11
+ account other
12
+ priority 0
13
+ qsub_time Mon Feb 28 00:05:05 2011
14
+ start_time Mon Feb 28 00:05:06 2011
15
+ end_time Mon Feb 28 00:09:05 2011
16
+ granted_pe NONE
17
+ slots 1
18
+ failed 0
19
+ exit_status 0
20
+ ru_wallclock 239
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+ ru_utime 0.712
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+ ru_minflt 117733
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+ ru_nswap 0
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+ ru_inblock 0
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+ ru_oublock 0
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+ iow 0.000
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+ maxvmem 344.859M
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+ arid undefined
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+ ==============================================================
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+ qname bdd-calcul-x.q
46
+ hostname compute-4.cloud.weborama.fr
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+ group prodsoft
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+ owner prodsoft
49
+ project WOUSDAT
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+ department defaultdepartment
51
+ jobname s20110227_23;init_jour;11
52
+ jobnumber 598007
53
+ taskid undefined
54
+ account other
55
+ priority 0
56
+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:05 2011
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+ granted_pe NONE
60
+ slots 1
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+ exit_status 0
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+ mem 0.026
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+ io 0.007
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+ iow 0.000
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+ maxvmem 344.750M
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+ arid undefined
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+ ==============================================================
88
+ qname bdd-calcul-x.q
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+ hostname compute-4.cloud.weborama.fr
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+ group prodsoft
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+ owner prodsoft
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+ project WOUSDAT
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+ department defaultdepartment
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+ jobname s20110227_23;init_jour;13
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+ jobnumber 598009
96
+ taskid undefined
97
+ account other
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+ priority 0
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+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:05 2011
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+ granted_pe NONE
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+ iow 0.000
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+ maxvmem 282.406M
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+ arid undefined
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+ ==============================================================
131
+ qname bdd-calcul-x.q
132
+ hostname compute-4.cloud.weborama.fr
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+ group prodsoft
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+ owner prodsoft
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+ project WOUSDAT
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+ department defaultdepartment
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+ jobname s20110227_23;init_jour;16
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+ jobnumber 598012
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+ taskid undefined
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+ account other
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+ priority 0
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+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:05 2011
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+ cpu 1.027
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+ mem 0.025
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+ io 0.007
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+ iow 0.000
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+ maxvmem 282.406M
172
+ arid undefined
173
+ ==============================================================
174
+ qname bdd-calcul-x.q
175
+ hostname compute-4.cloud.weborama.fr
176
+ group prodsoft
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+ owner prodsoft
178
+ project WOUSDAT
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+ department defaultdepartment
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+ jobname s20110227_23;init_jour;12
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+ jobnumber 598008
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+ taskid undefined
183
+ account other
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+ priority 0
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+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:06 2011
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+ granted_pe NONE
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+ iow 0.000
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+ maxvmem 282.406M
215
+ arid undefined
216
+ ==============================================================
217
+ qname bdd-calcul-x.q
218
+ hostname compute-4.cloud.weborama.fr
219
+ group prodsoft
220
+ owner prodsoft
221
+ project WOUSDAT
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+ department defaultdepartment
223
+ jobname s20110227_23;init_jour;14
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+ jobnumber 598010
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+ taskid undefined
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+ account other
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+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:07 2011
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+ maxvmem 282.406M
258
+ arid undefined
259
+ ==============================================================
260
+ qname bdd-calcul-x.q
261
+ hostname compute-4.cloud.weborama.fr
262
+ group prodsoft
263
+ owner prodsoft
264
+ project WOUSDAT
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+ department defaultdepartment
266
+ jobname s20110227_23;init_jour;15
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+ jobnumber 598011
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+ taskid undefined
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+ account other
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+ qsub_time Mon Feb 28 00:05:05 2011
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+ start_time Mon Feb 28 00:05:06 2011
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+ end_time Mon Feb 28 00:09:07 2011
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+ maxvmem 344.750M
301
+ arid undefined
302
+ ==============================================================
303
+ qname bdd-calcul-x.q
304
+ hostname compute-4.cloud.weborama.fr
305
+ group prodsoft
306
+ owner prodsoft
307
+ project WOUSDAT
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+ department defaultdepartment
309
+ jobname s20110227_23;init_jour;18
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+ jobnumber 598014
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+ taskid undefined
312
+ account other
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+ start_time Mon Feb 28 00:09:07 2011
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+ ==============================================================
346
+ qname bdd-calcul-x.q
347
+ hostname compute-4.cloud.weborama.fr
348
+ group prodsoft
349
+ owner prodsoft
350
+ project WOUSDAT
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+ department defaultdepartment
352
+ jobname s20110227_23;init_jour;19
353
+ jobnumber 598015
354
+ taskid undefined
355
+ account other
356
+ priority 0
357
+ qsub_time Mon Feb 28 00:05:05 2011
358
+ start_time Mon Feb 28 00:09:07 2011
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+ end_time Mon Feb 28 00:11:32 2011
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+ arid undefined
388
+ ==============================================================
389
+ qname bdd-calcul-x.q
390
+ hostname compute-4.cloud.weborama.fr
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+ group prodsoft
392
+ owner prodsoft
393
+ project WOUSDAT
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+ department defaultdepartment
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397
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398
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399
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400
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401
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+ arid undefined
431
+ ==============================================================
432
+ qname bdd-calcul-x.q
433
+ hostname compute-4.cloud.weborama.fr
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+ group prodsoft
435
+ owner prodsoft
436
+ project WOUSDAT
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+ department defaultdepartment
438
+ jobname s20110227_23;init_jour;22
439
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440
+ taskid undefined
441
+ account other
442
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443
+ qsub_time Mon Feb 28 00:05:05 2011
444
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+ end_time Mon Feb 28 00:11:32 2011
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473
+ arid undefined
474
+ ==============================================================
475
+ qname bdd-calcul-x.q
476
+ hostname compute-4.cloud.weborama.fr
477
+ group prodsoft
478
+ owner prodsoft
479
+ project WOUSDAT
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+ department defaultdepartment
481
+ jobname s20110227_23;init_jour;23
482
+ jobnumber 598019
483
+ taskid undefined
484
+ account other
485
+ priority 0
486
+ qsub_time Mon Feb 28 00:05:05 2011
487
+ start_time Mon Feb 28 00:09:09 2011
488
+ end_time Mon Feb 28 00:11:32 2011
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+ granted_pe NONE
490
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491
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493
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494
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512
+ mem 0.024
513
+ io 0.007
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+ iow 0.000
515
+ maxvmem 282.406M
516
+ arid undefined
517
+ ==============================================================
518
+ qname bdd-calcul-x.q
519
+ hostname compute-4.cloud.weborama.fr
520
+ group prodsoft
521
+ owner prodsoft
522
+ project WOUSDAT
523
+ department defaultdepartment
524
+ jobname s20110227_23;init_jour;24
525
+ jobnumber 598020
526
+ taskid undefined
527
+ account other
528
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529
+ qsub_time Mon Feb 28 00:05:05 2011
530
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531
+ end_time Mon Feb 28 00:11:32 2011
532
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533
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535
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536
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537
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991
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1034
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1038
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1076
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1122
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1124
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1126
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1464
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1476
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1477
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1507
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1511
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1520
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1550
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1554
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1560
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1562
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1563
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1564
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1567
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1589
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1590
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