[Avida-SVN] r3395 - in development: documentation source/utils/make_actions_html
goingssh at myxo.css.msu.edu
goingssh at myxo.css.msu.edu
Thu Sep 3 17:49:43 PDT 2009
Author: goingssh
Date: 2009-09-03 20:49:43 -0400 (Thu, 03 Sep 2009)
New Revision: 3395
Modified:
development/documentation/actions.html
development/source/utils/make_actions_html/actions_source_info
Log:
Added 2 new print events to documentation
Modified: development/documentation/actions.html
===================================================================
--- development/documentation/actions.html 2009-09-03 16:45:32 UTC (rev 3394)
+++ development/documentation/actions.html 2009-09-04 00:49:43 UTC (rev 3395)
@@ -9,7 +9,7 @@
<div class="revision">
Revised 2006-09-03 DMB
-<br>Generated Thu Feb 5 15:51:14 2009 by make_actions_html</div>
+<br>Generated Thu Sep 3 20:49:10 2009 by make_actions_html</div>
<p>
<a href="index.html">Return to the Index</a> |
@@ -65,6 +65,7 @@
<a href="#CompeteDemes">CompeteDemes</a><br>
<a href="#CompeteDemes_AttackKillAndEnergyConserve">CompeteDemes_AttackKillAndEnergyConserve</a><br>
<a href="#CompeteDemesByEnergyDistribution">CompeteDemesByEnergyDistribution</a><br>
+ <a href="#CompeteDemesByNetwork">CompeteDemesByNetwork</a><br>
<a href="#CompeteDemesByTaskCount">CompeteDemesByTaskCount</a><br>
<a href="#CompeteDemesByTaskCountAndEfficiency">CompeteDemesByTaskCountAndEfficiency</a><br>
<a href="#CompeteOrganisms">CompeteOrganisms</a><br>
@@ -77,10 +78,12 @@
<a href="#DelayedDemeEvent">DelayedDemeEvent</a><br>
<a href="#DelayedDemeEventsPerSlots">DelayedDemeEventsPerSlots</a><br>
<a href="#DeletionLandscape">DeletionLandscape</a><br>
+ <a href="#DemeResourceThresholdPredicate">DemeResourceThresholdPredicate</a><br>
<a href="#Desynchronization">Desynchronization</a><br>
<a href="#detail_parasite_pop">detail_parasite_pop</a><br>
<a href="#detail_pop">detail_pop</a><br>
<a href="#detail_sex_pop">detail_sex_pop</a><br>
+ <a href="#DiffuseHGTGenomeFragments">DiffuseHGTGenomeFragments</a><br>
<a href="#DisconnectCells">DisconnectCells</a><br>
<a href="#disconnect_cells">disconnect_cells</a><br>
<a href="#DivideDemes">DivideDemes</a><br>
@@ -150,6 +153,13 @@
<a href="#join_grid_row">join_grid_row</a><br>
<a href="#JoinGridCol">JoinGridCol</a><br>
<a href="#JoinGridRow">JoinGridRow</a><br>
+ <a href="#KillDemePercent">KillDemePercent</a><br>
+ <a href="#KillFractionInSequence">KillFractionInSequence</a><br>
+ <a href="#KillFractionInSequence_PopLimit">KillFractionInSequence_PopLimit</a><br>
+ <a href="#KillInstLimit">KillInstLimit</a><br>
+ <a href="#KillInstPair">KillInstPair</a><br>
+ <a href="#KillNAboveResourceThreshold">KillNAboveResourceThreshold</a><br>
+ <a href="#KillNBelowResourceThreshold">KillNBelowResourceThreshold</a><br>
<a href="#KillProb">KillProb</a><br>
<a href="#KillRate">KillRate</a><br>
<a href="#KillRectangle">KillRectangle</a><br>
@@ -158,14 +168,18 @@
<a href="#load_clone">load_clone</a><br>
<a href="#load_dump_file">load_dump_file</a><br>
<a href="#LoadPopulation">LoadPopulation</a><br>
+ <a href="#LoadStructuredPopulation">LoadStructuredPopulation</a><br>
+ <a href="#MigrateDemes">MigrateDemes</a><br>
+ <a href="#MixPopulation">MixPopulation</a><br>
<a href="#ModMutProb">ModMutProb</a><br>
- <td valign="top">
<a href="#MutationalNeighborhood">MutationalNeighborhood</a><br>
<a href="#new_trial">new_trial</a><br>
+ <td valign="top">
<a href="#NewTrial">NewTrial</a><br>
<a href="#outflow_scaled_resource">outflow_scaled_resource</a><br>
<a href="#OutflowScaledResource">OutflowScaledResource</a><br>
<a href="#PairTestLandscape">PairTestLandscape</a><br>
+ <a href="#Pause">Pause</a><br>
<a href="#PrecalcLandscape">PrecalcLandscape</a><br>
<a href="#Pred_DemeEventMoveBetweenTargets">Pred_DemeEventMoveBetweenTargets</a><br>
<a href="#Pred_DemeEventMoveCenter">Pred_DemeEventMoveCenter</a><br>
@@ -174,6 +188,9 @@
<a href="#PredictWLandscape">PredictWLandscape</a><br>
<a href="#print_average_data">print_average_data</a><br>
<a href="#PrintAverageData">PrintAverageData</a><br>
+ <a href="#PrintAvgDemeTasksExeData">PrintAvgDemeTasksExeData</a><br>
+ <a href="#PrintAvgTreatableDemeTasksExeData">PrintAvgTreatableDemeTasksExeData</a><br>
+ <a href="#PrintAvgUntreatableDemeTasksExeData">PrintAvgUntreatableDemeTasksExeData</a><br>
<a href="#PrintCCladeCounts">PrintCCladeCounts</a><br>
<a href="#PrintCCladeFitnessHistogram">PrintCCladeFitnessHistogram</a><br>
<a href="#PrintCCladeRelativeFitnessHistogram">PrintCCladeRelativeFitnessHistogram</a><br>
@@ -182,6 +199,7 @@
<a href="#PrintCompetitionData">PrintCompetitionData</a><br>
<a href="#print_count_data">print_count_data</a><br>
<a href="#PrintCountData">PrintCountData</a><br>
+ <a href="#PrintCurrentMeanDemeDensity">PrintCurrentMeanDemeDensity</a><br>
<a href="#PrintCurrentOpinions">PrintCurrentOpinions</a><br>
<a href="#PrintCurrentReactionData">PrintCurrentReactionData</a><br>
<a href="#PrintCurrentReactionRewardData">PrintCurrentReactionRewardData</a><br>
@@ -195,8 +213,10 @@
<a href="#PrintDemeCompetitionData">PrintDemeCompetitionData</a><br>
<a href="#PrintDemeCurrentTaskExeData">PrintDemeCurrentTaskExeData</a><br>
<a href="#PrintDemeDonorStats">PrintDemeDonorStats</a><br>
+ <a href="#PrintDemeEnergyDistributionStats">PrintDemeEnergyDistributionStats</a><br>
<a href="#PrintDemeEnergySharingStats">PrintDemeEnergySharingStats</a><br>
<a href="#PrintDemeFoundersData">PrintDemeFoundersData</a><br>
+ <a href="#PrintDemeGlobalResources">PrintDemeGlobalResources</a><br>
<a href="#PrintDemeMigrationSuicidePoints">PrintDemeMigrationSuicidePoints</a><br>
<a href="#PrintDemeOrgReactionData">PrintDemeOrgReactionData</a><br>
<a href="#PrintDemeOrgTasksData">PrintDemeOrgTasksData</a><br>
@@ -204,6 +224,7 @@
<a href="#PrintDemeReactionData">PrintDemeReactionData</a><br>
<a href="#PrintDemeReplicationData">PrintDemeReplicationData</a><br>
<a href="#PrintDemeResourceStats">PrintDemeResourceStats</a><br>
+ <a href="#PrintDemeResourceThresholdPredicate">PrintDemeResourceThresholdPredicate</a><br>
<a href="#PrintDemeSpacialEnergyStats">PrintDemeSpacialEnergyStats</a><br>
<a href="#PrintDemeSpacialSleepStats">PrintDemeSpacialSleepStats</a><br>
<a href="#PrintDemeStats">PrintDemeStats</a><br>
@@ -211,11 +232,15 @@
<a href="#PrintDemeTasksData">PrintDemeTasksData</a><br>
<a href="#PrintDemeTasksExeData">PrintDemeTasksExeData</a><br>
<a href="#PrintDemeTestamentStats">PrintDemeTestamentStats</a><br>
+ <a href="#PrintDemeTreatableCount">PrintDemeTreatableCount</a><br>
+ <a href="#PrintDemeTreatableReplicationData">PrintDemeTreatableReplicationData</a><br>
+ <a href="#PrintDemeUntreatableReplicationData">PrintDemeUntreatableReplicationData</a><br>
<a href="#print_depth_histogram">print_depth_histogram</a><br>
<a href="#PrintDepthHistogram">PrintDepthHistogram</a><br>
<a href="#print_detailed_fitness_data">print_detailed_fitness_data</a><br>
<a href="#PrintDetailedFitnessData">PrintDetailedFitnessData</a><br>
<a href="#PrintDetailedSynchronizationData">PrintDetailedSynchronizationData</a><br>
+ <a href="#PrintDirectReciprocityData">PrintDirectReciprocityData</a><br>
<a href="#print_divide_mut_data">print_divide_mut_data</a><br>
<a href="#PrintDivideMutData">PrintDivideMutData</a><br>
<a href="#print_dom">print_dom</a><br>
@@ -240,6 +265,9 @@
<a href="#print_genotypes">print_genotypes</a><br>
<a href="#PrintGenotypes">PrintGenotypes</a><br>
<a href="#PrintGermlineData">PrintGermlineData</a><br>
+ <a href="#PrintGroupIds">PrintGroupIds</a><br>
+ <a href="#PrintGroupsFormedData">PrintGroupsFormedData</a><br>
+ <a href="#PrintHGTData">PrintHGTData</a><br>
<a href="#print_instruction_abundance_histogram">print_instruction_abundance_histogram</a><br>
<a href="#print_instruction_data">print_instruction_data</a><br>
<a href="#PrintInstructionAbundanceHistogram">PrintInstructionAbundanceHistogram</a><br>
@@ -254,41 +282,51 @@
<a href="#print_market_data">print_market_data</a><br>
<a href="#PrintMarketData">PrintMarketData</a><br>
<a href="#PrintMessageData">PrintMessageData</a><br>
+ <a href="#PrintMigrationData">PrintMigrationData</a><br>
<a href="#print_mutation_rate_data">print_mutation_rate_data</a><br>
<a href="#PrintMutationRateData">PrintMutationRateData</a><br>
+ <a href="#PrintNewReactionData">PrintNewReactionData</a><br>
+ <a href="#PrintNewTasksData">PrintNewTasksData</a><br>
<a href="#print_number_phenotypes">print_number_phenotypes</a><br>
+ <a href="#PrintNumOrgsInDeme">PrintNumOrgsInDeme</a><br>
+ <a href="#PrintNumOrgsKilledData">PrintNumOrgsKilledData</a><br>
+ <a href="#PrintOpinionsSetPerDeme">PrintOpinionsSetPerDeme</a><br>
<a href="#PrintParasiteData">PrintParasiteData</a><br>
<a href="#PrintPerDemeGenPerFounderData">PrintPerDemeGenPerFounderData</a><br>
+ <td valign="top">
<a href="#PrintPerDemeReactionData">PrintPerDemeReactionData</a><br>
<a href="#PrintPerDemeTasksData">PrintPerDemeTasksData</a><br>
<a href="#PrintPerDemeTasksExeData">PrintPerDemeTasksExeData</a><br>
<a href="#print_phenotype_status">print_phenotype_status</a><br>
- <td valign="top">
<a href="#PrintPhenotypeData">PrintPhenotypeData</a><br>
<a href="#PrintPhenotypeStatus">PrintPhenotypeStatus</a><br>
<a href="#PrintPhenotypicPlasticity">PrintPhenotypicPlasticity</a><br>
+ <a href="#PrintPlasticGenotypeSummary">PrintPlasticGenotypeSummary</a><br>
<a href="#PrintPopulationDistanceData">PrintPopulationDistanceData</a><br>
<a href="#PrintPredicatedMessages">PrintPredicatedMessages</a><br>
<a href="#PrintReactionData">PrintReactionData</a><br>
<a href="#PrintReactionExeData">PrintReactionExeData</a><br>
<a href="#PrintReactionRewardData">PrintReactionRewardData</a><br>
<a href="#PrintRelativeFitnessHistogram">PrintRelativeFitnessHistogram</a><br>
+ <a href="#PrintReputationData">PrintReputationData</a><br>
<a href="#print_resource_data">print_resource_data</a><br>
<a href="#PrintResourceData">PrintResourceData</a><br>
<a href="#PrintSenseData">PrintSenseData</a><br>
<a href="#PrintSenseExeData">PrintSenseExeData</a><br>
+ <a href="#PrintShadedAltruists">PrintShadedAltruists</a><br>
<a href="#PrintSleepData">PrintSleepData</a><br>
<a href="#print_species_abundance_histogram">print_species_abundance_histogram</a><br>
<a href="#PrintSpeciesAbundanceHistogram">PrintSpeciesAbundanceHistogram</a><br>
<a href="#print_stats_data">print_stats_data</a><br>
<a href="#PrintStatsData">PrintStatsData</a><br>
+ <a href="#PrintStringMatchData">PrintStringMatchData</a><br>
<a href="#PrintSynchronizationData">PrintSynchronizationData</a><br>
+ <a href="#PrintTaskProbHistogram">PrintTaskProbHistogram</a><br>
<a href="#print_tasks_data">print_tasks_data</a><br>
<a href="#print_tasks_exe_data">print_tasks_exe_data</a><br>
<a href="#print_tasks_qual_data">print_tasks_qual_data</a><br>
<a href="#PrintTasksData">PrintTasksData</a><br>
<a href="#PrintTasksExeData">PrintTasksExeData</a><br>
- <a href="#PrintTaskProbHistogram">PrintTaskProbHistogram</a><br>
<a href="#PrintTaskSnapshot">PrintTaskSnapshot</a><br>
<a href="#PrintTasksQualData">PrintTasksQualData</a><br>
<a href="#print_time_data">print_time_data</a><br>
@@ -316,12 +354,18 @@
<a href="#SaveParasitePopulation">SaveParasitePopulation</a><br>
<a href="#SavePopulation">SavePopulation</a><br>
<a href="#SaveSexPopulation">SaveSexPopulation</a><br>
+ <a href="#SaveStructuredPopulation">SaveStructuredPopulation</a><br>
<a href="#SerialTransfer">SerialTransfer</a><br>
<a href="#serial_transfer">serial_transfer</a><br>
<a href="#SetCellResource">SetCellResource</a><br>
<a href="#SetConfig">SetConfig</a><br>
+ <a href="#SetDemeResource">SetDemeResource</a><br>
+ <a href="#SetDemeResourceInflow">SetDemeResourceInflow</a><br>
+ <a href="#SetDemeResourceOutflow">SetDemeResourceOutflow</a><br>
+ <a href="#SetDemeTreatmentAges">SetDemeTreatmentAges</a><br>
<a href="#SetEnvironmentInputs">SetEnvironmentInputs</a><br>
<a href="#SetEnvironmentRandomMask">SetEnvironmentRandomMask</a><br>
+ <a href="#SetFracDemeTreatable">SetFracDemeTreatable</a><br>
<a href="#SetMigrationRate">SetMigrationRate</a><br>
<a href="#SetMutProb">SetMutProb</a><br>
<a href="#SetNumInstBefore0Energy">SetNumInstBefore0Energy</a><br>
@@ -358,6 +402,9 @@
<a href="#task_snapshot">task_snapshot</a><br>
<a href="#test_dom">test_dom</a><br>
<a href="#TestDominant">TestDominant</a><br>
+ <a href="#TherapyDecayDemeResource">TherapyDecayDemeResource</a><br>
+ <a href="#TherapyStructuralNumInst">TherapyStructuralNumInst</a><br>
+ <a href="#TherapyStructuralRatioDistBetweenNearest">TherapyStructuralRatioDistBetweenNearest</a><br>
<a href="#ToggleFitnessValley">ToggleFitnessValley</a><br>
<a href="#ToggleRewardInstruction">ToggleRewardInstruction</a><br>
<a href="#TrackAllMessages">TrackAllMessages</a><br>
@@ -447,6 +494,14 @@
</p>
</li>
<li><p>
+ <strong><a name="Pause">Pause</a></strong>
+ <i>No Arguments</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="StopFastForward">StopFastForward</a></strong>
<i>none</i>
</p>
@@ -563,6 +618,30 @@
</p>
</li>
<li><p>
+ <strong><a name="SetDemeResource">SetDemeResource</a></strong>
+ <i><string res_name> <double res_count></i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="SetDemeResourceInflow">SetDemeResourceInflow</a></strong>
+ <i><int deme id> <string resource_name> <int inflow></i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="SetDemeResourceOutflow">SetDemeResourceOutflow</a></strong>
+ <i><int deme id> <string resource_name> <int outflow></i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="SetEnvironmentInputs">SetEnvironmentInputs</a></strong>
<i><int input_1> <int input_2> <int input_3> </i>
</p>
@@ -582,6 +661,13 @@
</p>
</li>
<li><p>
+ <strong><a name="SetFracDemeTreatable">SetFracDemeTreatable</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="SetNumInstBefore0Energy">SetNumInstBefore0Energy</a></strong>
<i><int new_value></i>
</p>
@@ -1002,6 +1088,13 @@
</p>
</li>
<li><p>
+ <strong><a name="CompeteDemesByNetwork">CompeteDemesByNetwork</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="CompeteDemesByTaskCount">CompeteDemesByTaskCount</a></strong>
<i>Competes demes according to the number of times a given task has been completed within that deme</i>
</p>
@@ -1098,6 +1191,13 @@
</p>
</li>
<li><p>
+ <strong><a name="DemeResourceThresholdPredicate">DemeResourceThresholdPredicate</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="Desynchronization">Desynchronization</a></strong>
</p>
<p>
@@ -1105,6 +1205,13 @@
</p>
</li>
<li><p>
+ <strong><a name="DiffuseHGTGenomeFragments">DiffuseHGTGenomeFragments</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="DisconnectCells">DisconnectCells</a></strong>
<i><int cellA_x> <int cellA_y> <int cellB_x> <int cellB_y></i>
</p>
@@ -1355,6 +1462,58 @@
</p>
</li>
<li><p>
+ <strong><a name="KillDemePercent">KillDemePercent</a></strong>
+ <i>[double pctkills=0.0]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillFractionInSequence">KillFractionInSequence</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillFractionInSequence_PopLimit">KillFractionInSequence_PopLimit</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillInstLimit">KillInstLimit</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillInstPair">KillInstPair</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillNAboveResourceThreshold">KillNAboveResourceThreshold</a></strong>
+ <i>[int numkills=0, string resource name, double threshold=0]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="KillNBelowResourceThreshold">KillNBelowResourceThreshold</a></strong>
+ <i>[int numkills=0, string resource name, double threshold=0]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="KillProb">KillProb</a></strong>
<i>[double probability=0.9]</i>
</p>
@@ -1396,6 +1555,22 @@
</p>
</li>
<li><p>
+ <strong><a name="MigrateDemes">MigrateDemes</a></strong>
+ <i><string resource name><double failure_percent></i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="MixPopulation">MixPopulation</a></strong>
+ <i>No arguments.</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="ModMutProb">ModMutProb</a></strong>
<i>[string mut_type="COPY_MUT"] [double prob=0.0] [int start_cell=-1] [int end_cell=-1]</i>
</p>
@@ -1432,7 +1607,6 @@
</li>
<li><p>
<strong><a name="Pred_DemeEventMoveCenter">Pred_DemeEventMoveCenter</a></strong>
- <i>[int times=1]</i>
</p>
<p>
@@ -1510,6 +1684,14 @@
</p>
</li>
<li><p>
+ <strong><a name="SetDemeTreatmentAges">SetDemeTreatmentAges</a></strong>
+ <i><int treatment age>+</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="SetMigrationRate">SetMigrationRate</a></strong>
<i>[double rate=0.0]</i>
</p>
@@ -1586,6 +1768,28 @@
</p>
</li>
<li><p>
+ <strong><a name="TherapyDecayDemeResource">TherapyDecayDemeResource</a></strong>
+ <i>[string resource_name=resname, string decrease_type=(none|lin|exp), double amount=0.2]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="TherapyStructuralNumInst">TherapyStructuralNumInst</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="TherapyStructuralRatioDistBetweenNearest">TherapyStructuralRatioDistBetweenNearest</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="ToggleFitnessValley">ToggleFitnessValley</a></strong>
<i>No Arguments</i>
</p>
@@ -1791,8 +1995,8 @@
<i>[string fname=""]</i>
</p>
<p>
- Print out the grid of tasks that organisms do. For each organism, tasks are first
- encoded as a binary string (e.g. 100000001 means that organism is doing NOT and EQU)
+ Print out the grid of takss that organisms do. For each organism, tasks are first
+ encoded as a binary string (e.g. 100000001 means that organism is doing NOT and EQU
and then reported as a base-10 number (257 in the example above).
</p>
@@ -1843,6 +2047,30 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintAvgDemeTasksExeData">PrintAvgDemeTasksExeData</a></strong>
+ <i>[string fname="avg_deme_tasks_exe.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintAvgTreatableDemeTasksExeData">PrintAvgTreatableDemeTasksExeData</a></strong>
+ <i>[string fname="avg_treatable_deme_tasks_exe.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintAvgUntreatableDemeTasksExeData">PrintAvgUntreatableDemeTasksExeData</a></strong>
+ <i>[string fname="avg_untreatable_deme_tasks_exe.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintCCladeCounts">PrintCCladeCounts</a></strong>
<i>[filename = "cclade_count.dat"]</i>
</p>
@@ -1933,6 +2161,13 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintCurrentMeanDemeDensity">PrintCurrentMeanDemeDensity</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintCurrentOpinions">PrintCurrentOpinions</a></strong>
</p>
<p>
@@ -2045,6 +2280,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintDemeEnergyDistributionStats">PrintDemeEnergyDistributionStats</a></strong>
+ <i>No Arguments</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintDemeEnergySharingStats">PrintDemeEnergySharingStats</a></strong>
<i>No Arguments</i>
</p>
@@ -2061,6 +2304,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintDemeGlobalResources">PrintDemeGlobalResources</a></strong>
+ <i>No Arguments</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintDemeMigrationSuicidePoints">PrintDemeMigrationSuicidePoints</a></strong>
<i>[string fname=" deme_mig_suicide_points.dat "]</i>
</p>
@@ -2117,6 +2368,13 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintDemeResourceThresholdPredicate">PrintDemeResourceThresholdPredicate</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintDemeSpacialEnergyStats">PrintDemeSpacialEnergyStats</a></strong>
<i>No Arguments</i>
</p>
@@ -2173,6 +2431,30 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintDemeTreatableCount">PrintDemeTreatableCount</a></strong>
+ <i>[string fname="deme_treatable.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintDemeTreatableReplicationData">PrintDemeTreatableReplicationData</a></strong>
+ <i>[string fname="deme_repl_treatable.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintDemeUntreatableReplicationData">PrintDemeUntreatableReplicationData</a></strong>
+ <i>[string fname="deme_repl_untreatable.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_depth_histogram">print_depth_histogram</a></strong>
<i>[string fname="depth_histogram.dat"]</i>
</p>
@@ -2214,6 +2496,13 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintDirectReciprocityData">PrintDirectReciprocityData</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_divide_mut_data">print_divide_mut_data</a></strong>
<i>[string fname="divide_mut.dat"]</i>
</p>
@@ -2460,6 +2749,27 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintGroupIds">PrintGroupIds</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintGroupsFormedData">PrintGroupsFormedData</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintHGTData">PrintHGTData</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_instruction_abundance_histogram">print_instruction_abundance_histogram</a></strong>
<i>[string fname="instruction_histogram.dat"]</i>
</p>
@@ -2589,6 +2899,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintMigrationData">PrintMigrationData</a></strong>
+ <i>[string fname="migration.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_mutation_rate_data">print_mutation_rate_data</a></strong>
<i>[string fname="mutation_rates.dat"]</i>
</p>
@@ -2608,6 +2926,28 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintNewReactionData">PrintNewReactionData</a></strong>
+ <i>[string fname=" newreactions.dat "]</i>
+ </p>
+ <p>
+ Print number of times the particular reaction has newly appeared in the population since
+ the last time this datum was printed. Newly appeared is defined as an organism triggering
+ a reaction that was not triggered by its parent.
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintNewTasksData">PrintNewTasksData</a></strong>
+ <i>[string fname=" newtasks.dat "]</i>
+ </p>
+ <p>
+ Print number of times the particular task has newly appeared in the population since
+ the last time this datum was printed. Newly appeared is defined as an organism executing
+ a task that was not executed by its parent.
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_number_phenotypes">print_number_phenotypes</a></strong>
<i>[string fname="phenotype_count.dat"]</i>
</p>
@@ -2617,6 +2957,29 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintNumOrgsInDeme">PrintNumOrgsInDeme</a></strong>
+ <i>No Arguments</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintNumOrgsKilledData">PrintNumOrgsKilledData</a></strong>
+ <i>[string fname="orgs_killed.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
+ <strong><a name="PrintOpinionsSetPerDeme">PrintOpinionsSetPerDeme</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintParasiteData">PrintParasiteData</a></strong>
<i>[string fname="parasite.dat"]</i>
</p>
@@ -2700,6 +3063,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintPlasticGenotypeSummary">PrintPlasticGenotypeSummary</a></strong>
+ <i>[string filename="genotype_plsticity.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintPopulationDistanceData">PrintPopulationDistanceData</a></strong>
<i>[string creature="START_CREATURE"] [string fname=""] [int save_genotypes=0]</i>
</p>
@@ -2756,6 +3127,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintReputationData">PrintReputationData</a></strong>
+ <i>[string fname="reputation.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_resource_data">print_resource_data</a></strong>
<i>[string fname="resource.dat"]</i>
</p>
@@ -2793,6 +3172,13 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintShadedAltruists">PrintShadedAltruists</a></strong>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintSleepData">PrintSleepData</a></strong>
<i>[string fname="sleep.dat"]</i>
</p>
@@ -2837,6 +3223,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintStringMatchData">PrintStringMatchData</a></strong>
+ <i>[string fname="stringmatch.dat"]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="PrintSynchronizationData">PrintSynchronizationData</a></strong>
</p>
<p>
@@ -2844,6 +3238,14 @@
</p>
</li>
<li><p>
+ <strong><a name="PrintTaskProbHistogram">PrintTaskProbHistogram</a></strong>
+ <i>[filename=pp_histogram.dat] [weightbycpus=0]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="print_tasks_data">print_tasks_data</a></strong>
<i>[string fname="tasks.dat"]</i>
</p>
@@ -2890,14 +3292,6 @@
</p>
</li>
<li><p>
- <strong><a name="PrintTaskProbHistogram">PrintTaskProbHistogram</a></strong>
- <i>[string fname="task_prob_hist.dat"] [int weight_by_num_cpus]</i>
- </p>
- <p>
- Count the number of genotypes or organisms (if weighted option is used) that perform each task, binned by the probability of doing the task.
- </p>
-</li>
-<li><p>
<strong><a name="PrintTaskSnapshot">PrintTaskSnapshot</a></strong>
<i>[string fname=""]</i>
</p>
@@ -3167,6 +3561,14 @@
</p>
</li>
<li><p>
+ <strong><a name="LoadStructuredPopulation">LoadStructuredPopulation</a></strong>
+ <i><cString fname> [int update=-1]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
+<li><p>
<strong><a name="save_clone">save_clone</a></strong>
<i>[string fname=""]</i>
</p>
@@ -3237,6 +3639,14 @@
</p>
</li>
+<li><p>
+ <strong><a name="SaveStructuredPopulation">SaveStructuredPopulation</a></strong>
+ <i>[string fname=""]</i>
+ </p>
+ <p>
+
+ </p>
+</li>
</UL>
<p> </p>
<h2><a name="CreateAction">Creating an Action</a></h2>
Modified: development/source/utils/make_actions_html/actions_source_info
===================================================================
--- development/source/utils/make_actions_html/actions_source_info 2009-09-03 16:45:32 UTC (rev 3394)
+++ development/source/utils/make_actions_html/actions_source_info 2009-09-04 00:49:43 UTC (rev 3395)
@@ -60,6 +60,14 @@
Print the total quality of each task. By default a successful task is valued
as 1.0. Some tasks, however, can grant partial values and/or special bonuses
via the quality value.
+=== Action PrintNewTasksData ===
+ Print number of times the particular task has newly appeared in the population since
+ the last time this datum was printed. Newly appeared is defined as an organism executing
+ a task that was not executed by its parent.
+=== Action PrintNewReactionData ===
+ Print number of times the particular reaction has newly appeared in the population since
+ the last time this datum was printed. Newly appeared is defined as an organism triggering
+ a reaction that was not triggered by its parent.
=== Action PrintResourceData ===
Print the current counts of each resource available to the population. This uses
the environment configuration to determine what resources are in use. Also creates
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