[Avida-SVN] r1565 - in development/tests: avida_GA_lim_res avida_GA_lim_res/expected avida_GA_lim_res/expected/data avida_GA_lim_res/expected/data/archive optimize_task_lim_res optimize_task_lim_res/expected optimize_task_lim_res/expected/data optimize_task_lim_res/expected/data/archive string_match_embed3 string_match_embed3/expected
goingssh at myxo.css.msu.edu
goingssh at myxo.css.msu.edu
Wed May 16 14:24:10 PDT 2007
Author: goingssh
Date: 2007-05-16 17:24:10 -0400 (Wed, 16 May 2007)
New Revision: 1565
Added:
development/tests/avida_GA_lim_res/expected/
development/tests/avida_GA_lim_res/expected/data/
development/tests/avida_GA_lim_res/expected/data/archive/
development/tests/avida_GA_lim_res/expected/data/archive/041-aaaab.org
development/tests/avida_GA_lim_res/expected/data/archive/041-aaaak.org
development/tests/avida_GA_lim_res/expected/data/archive/041-aaaaw.org
development/tests/avida_GA_lim_res/expected/data/archive/041-aaaci.org
development/tests/avida_GA_lim_res/expected/data/archive/041-aaacr.org
development/tests/avida_GA_lim_res/expected/data/archive/041-aaaea.org
development/tests/avida_GA_lim_res/expected/data/average.dat
development/tests/avida_GA_lim_res/expected/data/count.dat
development/tests/avida_GA_lim_res/expected/data/detail-100.pop
development/tests/avida_GA_lim_res/expected/data/dominant.dat
development/tests/avida_GA_lim_res/expected/data/historic-100.pop
development/tests/avida_GA_lim_res/expected/data/resource.dat
development/tests/avida_GA_lim_res/expected/data/stats.dat
development/tests/avida_GA_lim_res/expected/data/tasks.dat
development/tests/avida_GA_lim_res/expected/data/tasks_exe.dat
development/tests/avida_GA_lim_res/expected/data/tasks_quality.dat
development/tests/avida_GA_lim_res/expected/data/time.dat
development/tests/optimize_task_lim_res/expected/
development/tests/optimize_task_lim_res/expected/data/
development/tests/optimize_task_lim_res/expected/data/archive/
development/tests/optimize_task_lim_res/expected/data/archive/103-aaaaa.org
development/tests/optimize_task_lim_res/expected/data/average.dat
development/tests/optimize_task_lim_res/expected/data/count.dat
development/tests/optimize_task_lim_res/expected/data/detail-100.pop
development/tests/optimize_task_lim_res/expected/data/dominant.dat
development/tests/optimize_task_lim_res/expected/data/historic-100.pop
development/tests/optimize_task_lim_res/expected/data/resource.dat
development/tests/optimize_task_lim_res/expected/data/stats.dat
development/tests/optimize_task_lim_res/expected/data/tasks.dat
development/tests/optimize_task_lim_res/expected/data/tasks_exe.dat
development/tests/optimize_task_lim_res/expected/data/tasks_quality.dat
development/tests/optimize_task_lim_res/expected/data/time.dat
development/tests/string_match_embed3/expected/
development/tests/string_match_embed3/expected/data/
Log:
And what are tests without expected values? Worthless...
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaaab.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaaab.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaaab.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:45 2007
+# Filename........: archive/041-aaaab.org
+# Update Output...: 0
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: -1
+# Genotype ID.....: 196
+# Parent Gen ID...: -1
+# Tree Depth......: 0
+# Parent Distance.: -1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.243900)
+# optimize 1 (0.364311)
+# optimize 1 (0.794641)
+# optimize 1 (0.591970)
+# optimize 1 (0.655177)
+# optimize 1 (0.373331)
+
+
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add1
+repro
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaaak.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaaak.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaaak.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:45 2007
+# Filename........: archive/041-aaaak.org
+# Update Output...: 10
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: -1
+# Genotype ID.....: 25
+# Parent Gen ID...: -1
+# Tree Depth......: 0
+# Parent Distance.: -1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.469876)
+# optimize 1 (0.434191)
+# optimize 1 (0.757954)
+# optimize 1 (0.818469)
+# optimize 1 (0.707339)
+# optimize 1 (0.537822)
+
+
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+repro
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaaaw.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaaaw.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaaaw.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:45 2007
+# Filename........: archive/041-aaaaw.org
+# Update Output...: 60
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: 6
+# Genotype ID.....: 258
+# Parent Gen ID...: 25
+# Tree Depth......: 1
+# Parent Distance.: 1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.496951)
+# optimize 1 (0.461267)
+# optimize 1 (0.764130)
+# optimize 1 (0.824645)
+# optimize 1 (0.727598)
+# optimize 1 (0.537822)
+
+
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+repro
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaaci.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaaci.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaaci.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:45 2007
+# Filename........: archive/041-aaaci.org
+# Update Output...: 80
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: 49
+# Genotype ID.....: 460
+# Parent Gen ID...: 338
+# Tree Depth......: 3
+# Parent Distance.: 1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.516567)
+# optimize 1 (0.480883)
+# optimize 1 (0.766955)
+# optimize 1 (0.827471)
+# optimize 1 (0.742070)
+# optimize 1 (0.537822)
+
+
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+repro
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaacr.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaacr.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaacr.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:45 2007
+# Filename........: archive/041-aaacr.org
+# Update Output...: 90
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: 55
+# Genotype ID.....: 501
+# Parent Gen ID...: 460
+# Tree Depth......: 4
+# Parent Distance.: 1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.527423)
+# optimize 1 (0.471038)
+# optimize 1 (0.747748)
+# optimize 1 (0.843265)
+# optimize 1 (0.732740)
+# optimize 1 (0.559698)
+
+
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+repro
Added: development/tests/avida_GA_lim_res/expected/data/archive/041-aaaea.org
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/archive/041-aaaea.org (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/archive/041-aaaea.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,72 @@
+# Wed May 16 17:28:46 2007
+# Filename........: archive/041-aaaea.org
+# Update Output...: 100
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: 83
+# Genotype ID.....: 656
+# Parent Gen ID...: 595
+# Tree Depth......: 6
+# Parent Distance.: 1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 41
+# Fitness.........: 2.439024
+# Errors..........: 0
+# Genome Size.....: 41
+# Copied Size.....: 41
+# Executed Size...: 41
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.545408)
+# optimize 1 (0.489023)
+# optimize 1 (0.749121)
+# optimize 1 (0.844639)
+# optimize 1 (0.746000)
+# optimize 1 (0.559698)
+
+
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add1
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add1
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+IObuf-add0
+repro
Added: development/tests/avida_GA_lim_res/expected/data/average.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/average.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/average.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida Average Data
+# Wed May 16 17:28:45 2007
+# 1: Update
+# 2: Merit
+# 3: Gestation Time
+# 4: Fitness
+# 5: Repro Rate?
+# 6: Size
+# 7: Copied Size
+# 8: Executed Size
+# 9: Abundance
+# 10: Proportion of organisms that gave birth in this update
+# 11: Proportion of Breed True Organisms
+# 12: Genotype Depth
+# 13: Generation
+# 14: Neutral Metric
+# 15: Lineage Label
+# 16: True Replication Rate (based on births/update, time-averaged)
+
+0 173.789795 41.000000 1.897312 0.000000 41.000000 41.000000 41.000000 1.018100 1.026667 1.022222 0.004444 0.048889 -0.011256 0.000000 0.000000
+10 2.17586e+12 41 5.30698e+10 0 41 41 41 3.30882 0.537778 0.497778 0.315556 19.1867 1.65393 0 0
+20 1.584e+15 41 3.86342e+13 0 41 41 41 7.75862 0.568889 0.537778 0.737778 38.48 3.80826 0 0
+30 9.71129e+15 41 2.36861e+14 0 41 41 41 8.65385 0.497778 0.484444 1.26222 52.0133 2.33134 0 0
+40 1.31765e+16 41 3.21377e+14 0 41 41 41 8.65385 0.577778 0.537778 1.68 62.2933 -0.339976 0 0
+50 7.16099e+15 41 1.74658e+14 0 41 41 41 6.81818 0.52 0.488889 1.94667 71.1156 -2.20867 0 0
+60 9.5774e+15 41 2.33595e+14 0 41 41 41 6.08108 0.493333 0.466667 2.26667 79.9778 -1.59238 0 0
+70 8.9562e+15 41 2.18444e+14 0 41 41 41 5.4878 0.555556 0.52 2.83556 91.0489 1.1052 0 0
+80 1.17391e+16 41 2.8632e+14 0 41 41 41 6.61765 0.528889 0.506667 3.08 101.213 6.66036 0 0
+90 1.32003e+16 41 3.21958e+14 0 41 41 41 6.42857 0.564444 0.542222 3.82667 112.596 9.29117 0 0
+100 1.22402e+16 41 2.98543e+14 0 41 41 41 6.42857 0.568889 0.542222 4.63556 124.267 11.6263 0 0
Added: development/tests/avida_GA_lim_res/expected/data/count.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/count.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/count.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida count data
+# Wed May 16 17:28:45 2007
+# 1: update
+# 2: number of insts executed this update
+# 3: number of organisms
+# 4: number of different genotypes
+# 5: number of different threshold genotypes
+# 6: number of different species
+# 7: number of different threshold species
+# 8: number of different lineages
+# 9: number of births in this update
+# 10: number of deaths in this update
+# 11: number of breed true
+# 12: number of breed true organisms?
+# 13: number of no-birth organisms
+# 14: number of single-threaded organisms
+# 15: number of multi-threaded organisms
+# 16: number of modified organisms
+
+0 6750 225 221 2 0 0 0 231 6 230 224 220 225 0 0
+10 6750 225 68 20 0 0 0 121 121 112 210 140 225 0 0
+20 6750 225 29 16 0 0 0 128 128 121 213 122 225 0 0
+30 6750 225 26 15 0 0 0 112 112 109 216 124 225 0 0
+40 6750 225 26 15 0 0 0 130 130 121 214 115 225 0 0
+50 6750 225 33 17 0 0 0 117 117 110 211 119 225 0 0
+60 6750 225 37 22 0 0 0 111 111 105 206 125 225 0 0
+70 6750 225 41 28 0 0 0 125 125 117 210 117 225 0 0
+80 6750 225 34 27 0 0 0 119 119 114 212 118 225 0 0
+90 6750 225 35 27 0 0 0 127 127 122 214 116 225 0 0
+100 6750 225 35 30 0 0 0 128 128 122 214 118 225 0 0
Added: development/tests/avida_GA_lim_res/expected/data/detail-100.pop
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/detail-100.pop (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/detail-100.pop 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,52 @@
+#filetype genotype_data
+#format id parent_id parent_dist num_cpus total_cpus length merit gest_time fitness update_born update_dead depth sequence
+
+# 1: ID
+# 2: parent ID
+# 3: parent distance
+# 4: number of orgranisms currently alive
+# 5: total number of organisms that ever existed
+# 6: length of genome
+# 7: merit
+# 8: gestation time
+# 9: fitness
+# 10: update born
+# 11: update deactivated
+# 12: depth in phylogentic tree
+# 13: genome of organism
+
+656 595 1 38 214 41 2.01256e+16 41 4.90868e+14 83 -1 6 abaabbbabbaabbbabbaaabbbaaaaaaabaaaaaaaac
+501 460 1 30 428 41 1.38324e+16 41 3.37376e+14 55 -1 4 abaabbbabbaabbbabbaaabbbabaaaaababaaaaaac
+605 401 1 28 290 41 1.43903e+16 41 3.50983e+14 74 -1 3 abaabbbabbbabbbabbaaabbbabaaaabbaaaaaaaac
+618 501 1 21 188 41 1.62701e+16 41 3.96831e+14 77 -1 5 abaabbbabbaabbbabbaaabbbabaaaaaaabaaaaaac
+530 311 1 17 441 41 1.28769e+16 41 3.14071e+14 60 -1 4 abaabbbaabbabbbabbaabbbbabaaaabbbaaaaaaac
+699 656 1 15 63 41 1.88109e+16 41 4.58804e+14 90 -1 7 abaabbbabbaabbbabbaaabbbbaaaaaabaaaaaaaac
+660 643 1 12 90 41 1.68144e+16 41 4.10108e+14 84 -1 5 abaabbbabababbbabbaaabababaaaabbaaaaaaaac
+401 258 1 7 523 41 1.42292e+16 41 3.47054e+14 37 -1 2 abaabbbabbbabbbabbaaabbbabaaaabbbaaaaaaac
+595 501 1 7 130 41 1.36944e+16 41 3.34009e+14 72 -1 5 abaabbbabbaabbbabbaaabbbaaaaaaababaaaaaac
+626 460 1 4 39 41 1.32331e+16 41 3.22759e+14 78 -1 4 abaabbaabbbabbbabbaaabbbabaaaaababaaaaaac
+460 338 1 4 571 41 1.3972e+16 41 3.4078e+14 49 -1 3 abaabbbabbbabbbabbaaabbbabaaaaababaaaaaac
+338 258 1 4 613 41 1.48908e+16 41 3.63189e+14 24 -1 2 abaabbbabbbabbbabbaaabbbabaaaabbabaaaaaac
+670 605 1 4 22 41 1.5405e+16 41 3.75732e+14 85 -1 4 abaabbbabbbabbbabbaaaabbabaaaabbaaaaaaaac
+703 605 1 3 19 41 1.64934e+16 41 4.02279e+14 91 -1 4 abaabbbabbbabbbabbaaabbbabaaaaabaaaaaaaac
+727 660 1 3 5 41 1.06673e+16 41 2.60177e+14 96 -1 6 abaabbbabababbbabbaaabababaaaabbabaaaaaac
+719 656 1 3 12 41 1.74324e+16 41 4.25181e+14 95 -1 7 abaabbaabbaabbbabbaaabbbaaaaaaabaaaaaaaac
+647 619 1 3 19 41 8.08695e+15 41 1.97243e+14 82 -1 5 abaabbbbbbbabbbabbaaabbbabaabaabbaaaaaaac
+735 656 1 2 2 41 0 0 0 98 -1 7 abaabbbabbaabbbabbaaabbbaaaaaaabaaaabaaac
+678 460 1 2 7 41 9.15926e+15 41 2.23397e+14 86 -1 4 abaabbbabbbabbbabbaaabbbabaaabababaaaaaac
+741 703 1 2 2 41 0 0 0 99 -1 5 abaabbbabbbabbbabbaaabababaaaaabaaaaaaaac
+704 401 1 2 6 41 8.72843e+15 41 2.12888e+14 91 -1 3 abbabbbabbbabbbabbaaabbbabaaaabbbaaaaaaac
+725 605 1 1 4 41 1.37389e+16 41 3.35095e+14 96 -1 4 abaabbbabbbabbbabbaaabbaabaaaabbaaaaaaaac
+724 656 1 1 1 41 0 0 0 96 -1 7 abaabbbabbaabbbabbaaabbbaaaaaaabaaaaaaaab
+686 666 1 1 3 41 2.63418e+15 41 6.42483e+13 87 -1 6 abbabbbabbaabbbabbbaabbbabaaaaababaaaaaac
+740 401 1 1 1 41 0 0 0 99 -1 3 abaabbbabbbabbbabbaaabbbabaababbbaaaaaaac
+743 732 1 1 1 41 0 0 0 100 -1 5 abaabbbabbbabbbabbaaabbbababbabbaaaaaaaac
+732 605 1 1 3 41 1.36065e+16 41 3.31866e+14 97 -1 4 abaabbbabbbabbbabbaaabbbabaababbaaaaaaaac
+745 401 1 1 1 41 0 0 0 100 -1 3 abaabbbabbbabbbaabaaabbbabaaaabbbaaaaaaac
+746 656 1 1 1 41 0 0 0 100 -1 7 abaabbbabbaabbaabbaaabbbaaaaaaabaaaaaaaac
+726 605 1 1 4 41 1.40479e+16 41 3.42632e+14 96 -1 4 aaaabbbabbbabbbabbaaabbbabaaaabbaaaaaaaac
+747 656 1 1 1 41 0 0 0 100 -1 7 abaabbbabbaabbbabbaaabbbaabaaaabaaaaaaaac
+497 401 1 1 108 41 9.88684e+15 41 2.41142e+14 54 -1 3 abaabbbbbbbabbbabbaaabbbabaaaabbbaaaaaaac
+730 660 1 1 3 41 8.35178e+15 41 2.03702e+14 96 -1 6 abaabbbabababbbabbaaabababaaaabbaabaaaaac
+621 401 1 1 10 41 3.83569e+15 41 9.35533e+13 77 -1 3 abaabbbabbbabbaabbaaabbbabaaaabbbaaaaaaac
+748 618 1 1 1 41 0 0 0 100 -1 6 abaabbbabbaabbbabbaaabbbabaaaaaaabaaaabac
Added: development/tests/avida_GA_lim_res/expected/data/dominant.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/dominant.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/dominant.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida Dominant Data
+# Wed May 16 17:28:45 2007
+# 1: Update
+# 2: Average Merit of the Dominant Genotype
+# 3: Average Gestation Time of the Dominant Genotype
+# 4: Average Fitness of the Dominant Genotype
+# 5: Repro Rate?
+# 6: Size of Dominant Genotype
+# 7: Copied Size of Dominant Genotype
+# 8: Executed Size of Dominant Genotype
+# 9: Abundance of Dominant Genotype
+# 10: Number of Births
+# 11: Number of Dominant Breed True?
+# 12: Dominant Gene Depth
+# 13: Dominant Breed In
+# 14: Max Fitness?
+# 15: Genotype ID of Dominant Genotype
+# 16: Name of the Dominant Genotype
+
+0 1900.440923 41.000000 46.352218 0.024390 41 41.000000 41.000000 2 2 1 0 0 66.154439 196 041-aaaab
+10 4.17633e+11 41 1.01862e+10 0.0243902 41 41 41 97 69 64 0 0 1.74138e+11 25 041-aaaak
+20 8.04883e+14 41 1.96313e+13 0.0243902 41 41 41 100 75 72 1 0 6.79294e+13 258 041-aaaaw
+30 4.42292e+15 41 1.07876e+14 0.0243902 41 41 41 129 61 59 1 0 3.96052e+14 258 041-aaaaw
+40 7.14261e+15 41 1.7421e+14 0.0243902 41 41 41 115 67 62 1 0 5.28029e+14 258 041-aaaaw
+50 8.25926e+15 41 2.01445e+14 0.0243902 41 41 41 73 39 36 1 0 3.30444e+14 258 041-aaaaw
+60 8.63928e+15 41 2.10714e+14 0.0243902 41 41 41 41 15 13 1 0 4.27812e+14 258 041-aaaaw
+70 1.83613e+16 41 4.47837e+14 0.0243902 41 41 41 34 20 20 3 0 4.00045e+14 460 041-aaaci
+80 1.53403e+16 41 3.74154e+14 0.0243902 41 41 41 33 19 19 3 0 4.61338e+14 460 041-aaaci
+90 1.43461e+16 41 3.49904e+14 0.0243902 41 41 41 36 21 21 4 0 5.75224e+14 501 041-aaacr
+100 2.01256e+16 41 4.90868e+14 0.0243902 41 41 41 38 28 25 6 0 8.06848e+14 656 041-aaaea
Added: development/tests/avida_GA_lim_res/expected/data/historic-100.pop
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/historic-100.pop (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/historic-100.pop 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,24 @@
+#filetype genotype_data
+#format id parent_id parent_dist num_cpus total_cpus length merit gest_time fitness update_born update_dead depth sequence
+
+# 1: ID
+# 2: parent ID
+# 3: parent distance
+# 4: number of orgranisms currently alive
+# 5: total number of organisms that ever existed
+# 6: length of genome
+# 7: merit
+# 8: gestation time
+# 9: fitness
+# 10: update born
+# 11: update deactivated
+# 12: depth in phylogentic tree
+# 13: genome of organism
+
+643 605 1 0 9 41 1.46211e+16 41 3.56613e+14 81 92 4 abaabbbabbbabbbabbaaabababaaaabbaaaaaaaac
+258 25 1 0 2809 41 8.62712e+15 41 2.10418e+14 6 91 1 abaabbbabbbabbbabbaaabbbabaaaabbbbaaaaaac
+666 501 1 0 4 41 1.19586e+16 41 2.91673e+14 84 88 5 abbabbbabbaabbbabbaaabbbabaaaaababaaaaaac
+619 497 1 0 4 41 1.10158e+16 41 2.68679e+14 77 82 4 abaabbbbbbbabbbabbaaabbbabaaaaabbaaaaaaac
+311 288 1 0 309 41 1.32816e+16 41 3.23941e+14 18 80 3 abaabbbaabbabbbabbaabbbbabaaaabbbbaaaaaac
+25 -1 -1 0 1137 41 5.74945e+14 41 1.4023e+13 -1 43 0 abaabbbabbbabbbabbaaabbbabaaaabbbbabaaaac
+288 258 1 0 32 41 2.37462e+15 41 5.79177e+13 12 28 2 abaabbbabbbabbbabbaabbbbabaaaabbbbaaaaaac
Added: development/tests/avida_GA_lim_res/expected/data/resource.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/resource.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/resource.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,19 @@
+# Avida resource data
+# Wed May 16 17:28:45 2007
+# First column gives the current update, all further columns give the quantity
+# of the particular resource at that update.
+# 1: Update
+# 2: resOPT1
+# 3: resOPT2
+
+0 991.104455 991.674286
+10 6235.59 6435.22
+20 7549.3 7993.56
+30 7892.79 8449.81
+40 7850.45 8456.24
+50 7799.36 8407.56
+60 7827.47 8441.19
+70 7721.11 8349.56
+80 7756.16 8382.15
+90 7731.69 8341.67
+100 7657.7 8255.49
Added: development/tests/avida_GA_lim_res/expected/data/stats.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/stats.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/stats.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,26 @@
+# Generic Statistics Data
+# Wed May 16 17:28:45 2007
+# 1: update
+# 2: average inferiority (energy)
+# 3: ave probability of any mutations in genome
+# 4: probability of any mutations in dom genome
+# 5: log(average fidelity)
+# 6: log(dominant fidelity)
+# 7: change in number of genotypes
+# 8: genotypic entropy
+# 9: species entropy
+# 10: depth of most reacent coalescence
+# 11: Total number of resamplings this generation
+# 12: Total number of organisms that failed to resample this generation
+
+0 3.195831 0.066104 0.066104 0.068390 0.068390 221 5.391455 0.000000 0 0 0
+10 -1.65058 0.0661041 0.0661041 0.0683903 0.0683903 -7 2.78881 0 0 0 0
+20 -0.677013 0.0661041 0.0661041 0.0683903 0.0683903 2 1.69263 0 0 0 0
+30 -0.786489 0.0661041 0.0661041 0.0683903 0.0683903 0 1.74307 0 1 0 0
+40 -0.612353 0.0661041 0.0661041 0.0683903 0.0683903 5 1.96733 0 1 0 0
+50 0.142687 0.0661041 0.0661041 0.0683903 0.0683903 -2 2.41687 0 1 0 0
+60 -0.103088 0.0661041 0.0661041 0.0683903 0.0683903 1 2.89012 0 1 0 0
+70 0.7179 0.0661041 0.0661041 0.0683903 0.0683903 4 3.07481 0 1 0 0
+80 0.267556 0.0661041 0.0661041 0.0683903 0.0683903 -3 2.82867 0 1 0 0
+90 0.0832387 0.0661041 0.0661041 0.0683903 0.0683903 1 2.82608 0 1 0 0
+100 0.497263 0.0661041 0.0661041 0.0683903 0.0683903 2 2.8194 0 1 0 0
Added: development/tests/avida_GA_lim_res/expected/data/tasks.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/tasks.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/tasks.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,23 @@
+# Avida tasks data
+# Wed May 16 17:28:45 2007
+# First column gives the current update, next columns give the number
+# of organisms that have the particular task as a component of their merit
+# 1: Update
+# 2: Optimize
+# 3: Optimize
+# 4: Optimize
+# 5: Optimize
+# 6: Optimize
+# 7: Optimize
+
+0 9 9 9 9 9 9
+10 188 188 188 188 188 188
+20 220 220 220 220 220 220
+30 224 224 224 224 224 224
+40 225 225 225 225 225 225
+50 225 225 225 225 225 225
+60 225 225 225 225 225 225
+70 225 225 225 225 225 225
+80 225 225 225 225 225 225
+90 225 225 225 225 225 225
+100 225 225 225 225 225 225
Added: development/tests/avida_GA_lim_res/expected/data/tasks_exe.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/tasks_exe.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/tasks_exe.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,23 @@
+# Avida tasks execution data
+# Wed May 16 17:28:45 2007
+# First column gives the current update, all further columns give the number
+# of times the particular task has been executed this update.
+# 1: Update
+# 2: Optimize
+# 3: Optimize
+# 4: Optimize
+# 5: Optimize
+# 6: Optimize
+# 7: Optimize
+
+0 9 9 9 9 9 9
+10 188 188 188 188 188 188
+20 220 220 220 220 220 220
+30 224 224 224 224 224 224
+40 225 225 225 225 225 225
+50 225 225 225 225 225 225
+60 225 225 225 225 225 225
+70 225 225 225 225 225 225
+80 225 225 225 225 225 225
+90 225 225 225 225 225 225
+100 225 225 225 225 225 225
Added: development/tests/avida_GA_lim_res/expected/data/tasks_quality.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/tasks_quality.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/tasks_quality.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,28 @@
+# Avida tasks quality data
+# Wed May 16 17:28:45 2007
+# First column gives the current update, rest give average and max task quality
+# 1: Update
+# 2: Optimize Average
+# 3: Optimize Max
+# 4: Optimize Average
+# 5: Optimize Max
+# 6: Optimize Average
+# 7: Optimize Max
+# 8: Optimize Average
+# 9: Optimize Max
+# 10: Optimize Average
+# 11: Optimize Max
+# 12: Optimize Average
+# 13: Optimize Max
+
+0 0.277655 0.338526 0.380140 0.486429 0.796519 0.882951 0.624279 0.720563 0.553185 0.752270 0.392350 0.472026
+10 0.448857 0.545538 0.432256 0.501032 0.76413 0.892473 0.792521 0.906654 0.69147 0.766917 0.517744 0.712776
+20 0.481453 0.515456 0.449076 0.581495 0.762533 0.920705 0.817515 0.850891 0.71694 0.855129 0.534364 0.574793
+30 0.49553 0.543097 0.455989 0.47359 0.759682 0.766067 0.8267 0.904904 0.72244 0.736711 0.541887 0.675094
+40 0.499285 0.515456 0.460508 0.540839 0.761132 0.884168 0.826888 0.850891 0.729205 0.787967 0.541097 0.574793
+50 0.500907 0.531817 0.459522 0.568554 0.75867 0.911439 0.828841 0.871466 0.727141 0.789917 0.543857 0.606196
+60 0.503976 0.564483 0.463321 0.543393 0.759837 0.884638 0.828734 0.905908 0.724791 0.789718 0.543061 0.665292
+70 0.508806 0.527423 0.469823 0.566548 0.762324 0.894627 0.828422 0.843265 0.732607 0.852055 0.541311 0.559698
+80 0.515 0.544719 0.47253 0.489611 0.75994 0.775822 0.831929 0.870137 0.735634 0.748451 0.544993 0.600304
+90 0.522956 0.545408 0.477285 0.559608 0.757618 0.88371 0.835019 0.870137 0.737432 0.768194 0.548376 0.600304
+100 0.530138 0.549273 0.481719 0.559608 0.755563 0.88371 0.837612 0.870137 0.741156 0.768194 0.551281 0.600304
Added: development/tests/avida_GA_lim_res/expected/data/time.dat
===================================================================
--- development/tests/avida_GA_lim_res/expected/data/time.dat (rev 0)
+++ development/tests/avida_GA_lim_res/expected/data/time.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,18 @@
+# Avida time data
+# Wed May 16 17:28:45 2007
+# 1: update
+# 2: avida time
+# 3: average generation
+# 4: num_executed?
+
+0 0.000000 0.048889 6750
+10 0.00583604 19.1867 6750
+20 0.00583604 38.48 6750
+30 0.00583604 52.0133 6750
+40 0.00583604 62.2933 6750
+50 0.00583604 71.1156 6750
+60 0.00583604 79.9778 6750
+70 0.00583604 91.0489 6750
+80 0.00583604 101.213 6750
+90 0.00583604 112.596 6750
+100 0.00583604 124.267 6750
Added: development/tests/optimize_task_lim_res/expected/data/archive/103-aaaaa.org
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/archive/103-aaaaa.org (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/archive/103-aaaaa.org 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,130 @@
+# Wed May 16 17:29:01 2007
+# Filename........: archive/103-aaaaa.org
+# Update Output...: 100
+# Is Viable.......: 1
+# Repro Cycle Size: 0
+# Depth to Viable.: 0
+# Update Created..: -1
+# Genotype ID.....: 1
+# Parent Gen ID...: -1
+# Tree Depth......: 0
+# Parent Distance.: -1
+#
+# Generation: 0
+# Merit...........: 100.000000
+# Gestation Time..: 237
+# Fitness.........: 0.421941
+# Errors..........: 5
+# Genome Size.....: 103
+# Copied Size.....: 103
+# Executed Size...: 100
+# Offspring.......: SELF
+#
+# Tasks Performed:
+# optimize 1 (0.941115)
+# optimize 1 (0.470749)
+
+
+h-alloc
+h-search
+set-flow
+nop-A
+mov-head
+nop-C
+IO
+sub
+nop-A
+push
+add
+IO
+dec
+nop-B
+if-n-equ
+add
+h-search
+if-label
+get-head
+nop-B
+nop-C
+h-copy
+h-copy
+h-copy
+dec
+swap-stk
+nop-B
+if-less
+h-search
+dec
+nop-B
+inc
+nop-C
+if-less
+swap
+if-n-equ
+h-search
+inc
+nop-C
+add
+h-alloc
+IO
+pop
+nop-A
+sub
+dec
+swap
+dec
+nop-B
+h-copy
+if-less
+h-alloc
+push
+nop-A
+inc
+nop-A
+h-divide
+nand
+inc
+sub
+h-search
+push
+if-less
+swap
+h-copy
+h-divide
+h-copy
+inc
+h-copy
+h-alloc
+nop-C
+push
+if-n-equ
+nop-C
+get-head
+nop-A
+get-head
+sub
+nand
+if-less
+shift-r
+shift-l
+pop
+inc
+pop
+sub
+add
+if-label
+IO
+nop-C
+pop
+swap
+h-search
+h-copy
+h-copy
+h-copy
+if-label
+nop-C
+nop-A
+h-divide
+mov-head
+nop-A
+nop-B
Added: development/tests/optimize_task_lim_res/expected/data/average.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/average.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/average.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida Average Data
+# Wed May 16 17:29:00 2007
+# 1: Update
+# 2: Merit
+# 3: Gestation Time
+# 4: Fitness
+# 5: Repro Rate?
+# 6: Size
+# 7: Copied Size
+# 8: Executed Size
+# 9: Abundance
+# 10: Proportion of organisms that gave birth in this update
+# 11: Proportion of Breed True Organisms
+# 12: Genotype Depth
+# 13: Generation
+# 14: Neutral Metric
+# 15: Lineage Label
+# 16: True Replication Rate (based on births/update, time-averaged)
+
+0 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 226.000000 226.000000 0.000000 0.000000 0.000000 0.000000 0.000000
+10 103.843 237 0.438157 0 102.991 103 100 3.125 0.0177778 0.00888889 0.324444 1 0.0519675 0 0
+20 113.222 236.702 0.479699 0 102.996 102.098 98.2578 2.00893 0.00444444 0 0.6 1.99111 0.178637 0 0
+30 116.059 237.947 0.487937 0 102.96 101.871 98.2 1.81452 0.0577778 0.0311111 0.831111 3.14667 0.0639032 0 0
+40 117.499 239.764 0.491053 0 102.884 102.009 98.3289 1.65441 0.0577778 0.0488889 1.02222 4.42222 0.105497 0 0
+50 118.907 239.667 0.496676 0 102.996 102.538 98.9733 1.47059 0.124444 0.0622222 1.28 5.72 -0.0304785 0 0
+60 115.991 252.969 0.477926 0 102.969 102.529 97.8 1.44231 0.128889 0.0533333 1.48444 7.05333 0.0551959 0 0
+70 115.264 259.973 0.47364 0 102.956 102.516 97.3467 1.35542 0.00888889 0 1.71111 8.12889 0.0590925 0 0
+80 119.413 258.422 0.489366 0 102.938 102.062 97.1244 1.41509 0.0444444 0.0222222 2.04444 9.20444 -0.0915894 0 0
+90 120.267 255.6 0.493343 0 102.96 102.267 97.2489 1.42405 0.0355556 0.0266667 2.24889 10.3244 -0.15469 0 0
+100 119.133 258.929 0.487767 0 102.947 102.124 96.7289 1.6791 0.128889 0.102222 2.45333 11.8356 -0.0197198 0 0
Added: development/tests/optimize_task_lim_res/expected/data/count.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/count.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/count.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida count data
+# Wed May 16 17:29:00 2007
+# 1: update
+# 2: number of insts executed this update
+# 3: number of organisms
+# 4: number of different genotypes
+# 5: number of different threshold genotypes
+# 6: number of different species
+# 7: number of different threshold species
+# 8: number of different lineages
+# 9: number of births in this update
+# 10: number of deaths in this update
+# 11: number of breed true
+# 12: number of breed true organisms?
+# 13: number of no-birth organisms
+# 14: number of single-threaded organisms
+# 15: number of multi-threaded organisms
+# 16: number of modified organisms
+
+0 30 1 1 1 0 0 0 226 1 226 1 1 1 0 0
+10 6750 225 72 1 0 0 0 4 4 2 152 126 225 0 0
+20 6750 225 112 2 0 0 0 1 1 0 117 127 225 0 0
+30 6750 225 124 2 0 0 0 13 13 7 108 129 225 0 0
+40 6750 225 136 4 0 0 0 13 13 11 105 127 225 0 0
+50 6750 225 153 15 0 0 0 28 28 14 93 131 225 0 0
+60 6750 225 156 22 0 0 0 29 29 12 100 139 225 0 0
+70 6750 225 166 25 0 0 0 2 2 0 90 137 225 0 0
+80 6750 225 159 27 0 0 0 10 10 5 93 142 225 0 0
+90 6750 225 158 31 0 0 0 8 8 6 97 134 225 0 0
+100 6750 225 134 47 0 0 0 29 29 23 134 135 225 0 0
Added: development/tests/optimize_task_lim_res/expected/data/detail-100.pop
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/detail-100.pop (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/detail-100.pop 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,151 @@
+#filetype genotype_data
+#format id parent_id parent_dist num_cpus total_cpus length merit gest_time fitness update_born update_dead depth sequence
+
+# 1: ID
+# 2: parent ID
+# 3: parent distance
+# 4: number of orgranisms currently alive
+# 5: total number of organisms that ever existed
+# 6: length of genome
+# 7: merit
+# 8: gestation time
+# 9: fitness
+# 10: update born
+# 11: update deactivated
+# 12: depth in phylogentic tree
+# 13: genome of organism
+
+1 -1 -1 9 506 103 114.565 237 0.483397 -1 -1 0 ruzavcqoagnqmbdnuyxbctttmhbeumblceidulcnrqfaomimbtergalasplougeitstltrcgdcxaxopejkflfonyqcfiutttycasvab
+142 1 1 6 12 103 111.143 237 0.468957 17 -1 1 ruzavcqoagnqmbdnuyxbctttmhbeumblceidulcnrqfaomimbtergalasplougeitstltrcgdcxaxopejkflfknyqcfiutttycasvab
+725 374 1 6 6 103 136.853 235 0.582353 81 -1 4 ruzavcqoagnqmbdbuyxactttmhbeumblceidulcnrqfaomimbtergalasplougeitstltrcgdcdaxopejkflfonyqcdiutttycasvab
+551 485 1 4 5 103 119.295 238 0.501239 60 -1 2 ruzavcqoagnqmbdnuyxbctttmhbeumblceidulcnrqfaomihbtergalasplougeitstltrcgdcxaxopejkflfonygcfiutttycasvab
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Added: development/tests/optimize_task_lim_res/expected/data/dominant.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/dominant.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/dominant.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,30 @@
+# Avida Dominant Data
+# Wed May 16 17:29:00 2007
+# 1: Update
+# 2: Average Merit of the Dominant Genotype
+# 3: Average Gestation Time of the Dominant Genotype
+# 4: Average Fitness of the Dominant Genotype
+# 5: Repro Rate?
+# 6: Size of Dominant Genotype
+# 7: Copied Size of Dominant Genotype
+# 8: Executed Size of Dominant Genotype
+# 9: Abundance of Dominant Genotype
+# 10: Number of Births
+# 11: Number of Dominant Breed True?
+# 12: Dominant Gene Depth
+# 13: Dominant Breed In
+# 14: Max Fitness?
+# 15: Genotype ID of Dominant Genotype
+# 16: Name of the Dominant Genotype
+
+0 0.000000 0.000000 0.000000 0.000000 103 0.000000 0.000000 1 0 0 0 0 0.000000 1 103-aaaaa
+10 103.861 237 0.438232 0.00421941 103 103 100 152 4 2 0 0 0.545566 1 103-aaaaa
+20 112.45 237 0.474471 0.00421941 103 103 100 104 0 0 0 0 0.992336 1 103-aaaaa
+30 113.14 237 0.477382 0.00421941 103 103 100 81 5 3 0 0 0.966471 1 103-aaaaa
+40 113.892 237 0.480557 0.00421941 103 103 100 67 5 4 0 0 0.966471 1 103-aaaaa
+50 114.3 237 0.482278 0.00421941 103 103 100 40 7 3 0 0 0.966471 1 103-aaaaa
+60 114.564 237 0.483391 0.00421941 103 103 100 34 7 4 0 0 0.636116 1 103-aaaaa
+70 114.579 237 0.483454 0.00421941 103 103 100 29 0 0 0 0 0.648211 1 103-aaaaa
+80 114.52 237 0.483207 0.00421941 103 103 100 25 0 0 0 0 0.71491 1 103-aaaaa
+90 114.486 237 0.483064 0.00421941 103 103 100 15 0 0 0 0 0.64838 1 103-aaaaa
+100 114.565 237 0.483397 0.00421941 103 103 100 9 1 0 0 0 0.66935 1 103-aaaaa
Added: development/tests/optimize_task_lim_res/expected/data/historic-100.pop
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/historic-100.pop (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/historic-100.pop 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,70 @@
+#filetype genotype_data
+#format id parent_id parent_dist num_cpus total_cpus length merit gest_time fitness update_born update_dead depth sequence
+
+# 1: ID
+# 2: parent ID
+# 3: parent distance
+# 4: number of orgranisms currently alive
+# 5: total number of organisms that ever existed
+# 6: length of genome
+# 7: merit
+# 8: gestation time
+# 9: fitness
+# 10: update born
+# 11: update deactivated
+# 12: depth in phylogentic tree
+# 13: genome of organism
+
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Added: development/tests/optimize_task_lim_res/expected/data/resource.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/resource.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/resource.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,19 @@
+# Avida resource data
+# Wed May 16 17:29:00 2007
+# First column gives the current update, all further columns give the quantity
+# of the particular resource at that update.
+# 1: Update
+# 2: resOPT1
+# 3: resOPT4
+
+0 3.917505 3.948369
+10 3.33605 4.45993
+20 7.15147 9.17182
+30 3.67512 8.13949
+40 3.10315 8.2806
+50 1.4527 4.61784
+60 1.19801 2.66448
+70 4.78932 7.00286
+80 4.29639 8.83482
+90 5.23479 10.7489
+100 1.04764 3.83498
Added: development/tests/optimize_task_lim_res/expected/data/stats.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/stats.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/stats.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,26 @@
+# Generic Statistics Data
+# Wed May 16 17:29:00 2007
+# 1: update
+# 2: average inferiority (energy)
+# 3: ave probability of any mutations in genome
+# 4: probability of any mutations in dom genome
+# 5: log(average fidelity)
+# 6: log(dominant fidelity)
+# 7: change in number of genotypes
+# 8: genotypic entropy
+# 9: species entropy
+# 10: depth of most reacent coalescence
+# 11: Total number of resamplings this generation
+# 12: Total number of organisms that failed to resample this generation
+
+0 0.000000 0.097500 0.571758 0.102587 0.848066 1 0.000000 0.000000 0 0 0
+10 0.000169846 0.57173 0.571758 0.848002 0.848066 0 2.00987 0 0 0 0
+20 -0.0109567 0.571744 0.571758 0.848034 0.848066 1 3.20775 0 0 0 0
+30 -0.0218691 0.571634 0.571758 0.847777 0.848066 -2 3.69855 0 0 0 0
+40 -0.0216074 0.571399 0.571758 0.84723 0.848066 -7 4.01616 0 0 0 0
+50 -0.0294172 0.571744 0.571758 0.848034 0.848066 3 4.52807 0 0 0 0
+60 0.0113688 0.571661 0.571758 0.847841 0.848066 3 4.63747 0 0 0 0
+70 0.0205103 0.57162 0.571758 0.847745 0.848066 1 4.75986 0 0 0 0
+80 -0.0126664 0.571565 0.571758 0.847616 0.848066 1 4.76228 0 0 0 0
+90 -0.0210549 0.571634 0.571758 0.847777 0.848066 -2 4.87193 0 0 0 0
+100 -0.00899932 0.571592 0.571758 0.84768 0.848066 -6 4.71184 0 0 0 0
Added: development/tests/optimize_task_lim_res/expected/data/tasks.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/tasks.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/tasks.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,19 @@
+# Avida tasks data
+# Wed May 16 17:29:00 2007
+# First column gives the current update, next columns give the number
+# of organisms that have the particular task as a component of their merit
+# 1: Update
+# 2: Optimize
+# 3: Optimize
+
+0 0 0
+10 225 225
+20 225 225
+30 225 225
+40 225 225
+50 225 225
+60 225 225
+70 225 225
+80 225 225
+90 225 225
+100 225 225
Added: development/tests/optimize_task_lim_res/expected/data/tasks_exe.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/tasks_exe.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/tasks_exe.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,19 @@
+# Avida tasks execution data
+# Wed May 16 17:29:00 2007
+# First column gives the current update, all further columns give the number
+# of times the particular task has been executed this update.
+# 1: Update
+# 2: Optimize
+# 3: Optimize
+
+0 0 0
+10 225 225
+20 225 225
+30 225 225
+40 225 225
+50 225 225
+60 225 225
+70 225 225
+80 225 225
+90 225 225
+100 225 225
Added: development/tests/optimize_task_lim_res/expected/data/tasks_quality.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/tasks_quality.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/tasks_quality.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,20 @@
+# Avida tasks quality data
+# Wed May 16 17:29:00 2007
+# First column gives the current update, rest give average and max task quality
+# 1: Update
+# 2: Optimize Average
+# 3: Optimize Max
+# 4: Optimize Average
+# 5: Optimize Max
+
+0 0.000000 0.000000 0.000000 0.000000
+10 0.939624 0.941394 0.472049 0.473752
+20 0.966809 1 0.422463 0.47382
+30 0.972612 1 0.411978 0.473798
+40 0.975269 1 0.407031 0.473789
+50 0.973625 1 0.409432 0.473805
+60 0.97702 1 0.403495 0.473809
+70 0.976546 1 0.404549 0.473805
+80 0.973807 1 0.409379 0.473815
+90 0.97525 1 0.405669 0.473805
+100 0.973349 1 0.40841 0.47381
Added: development/tests/optimize_task_lim_res/expected/data/time.dat
===================================================================
--- development/tests/optimize_task_lim_res/expected/data/time.dat (rev 0)
+++ development/tests/optimize_task_lim_res/expected/data/time.dat 2007-05-16 21:24:10 UTC (rev 1565)
@@ -0,0 +1,18 @@
+# Avida time data
+# Wed May 16 17:29:00 2007
+# 1: update
+# 2: avida time
+# 3: average generation
+# 4: num_executed?
+
+0 0.000000 0.000000 30
+10 0.0893952 1 6750
+20 0.18139 1.99111 6750
+30 0.270932 3.14667 6750
+40 0.356946 4.42222 6750
+50 0.442967 5.72 6750
+60 0.527267 7.05333 6750
+70 0.613153 8.12889 6750
+80 0.699254 9.20444 6750
+90 0.782924 10.3244 6750
+100 0.866929 11.8356 6750
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