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Selective press extinctions, but not random pulse extinctions, cause delayed ecological recovery in communities of digital organisms.
(American Naturalist)

SOURCE CODE DISTRIBUTION

Avida_v2.1_distrib.tar--distribution of Avida source code used to run main experiments

ENVIRONMENT FILES

env.9cd3_lossy--environment file used for main experiments
env.9cd3_lossyEMPTY--environment file used for low-density experiments

EVENT FILES

evnt9rCD3dropAB_nopress_100KU_ECOSTBL.cfg--event file used for main experiments, to get pre-extinction full and ecologically stable communities
evnt9rCD3dropAB_nopress_205KU_ECOSTBL.cfg--event file used for main experiments, to get control population after 205000 updates in absence of press episode (full and ecologically stable population)
evnt9rCD3dropAB_RESTE_205KU_ECOSTBL.cfg--event file used for main experiments, with extinction and recovery (full and ecologically stable populations)
evnt9rCD3dropAB_RESTE_405KU_ECOSTBL.cfg--event file used for extended recovery experiments
evnt9rCD3_injseqindivrec100K.cfg--event file used for low-density experiments
evnt9rCD3AB_pulseto4_ECOSTBL.cfg--event file used for pulse extinction experiments
evnt9rCD3dropAB_PERMPRESS.cfg--event file used for permanent press experiment
evnt9rCD3dropAB_GRADRED2500PERMPR_2.cfg--event file used for graded reduction, no restoration
evnt9rCD3dropAB_GRADREST2500U.cfg--event file used for graded restoration

EXPERIMENT STARTUP FILES

genesis--main file with master startup parameter settings (world description, mutation rates etc.)
organism.heads.50--default seed ancestor used to start all main experiments

ADDITIONAL DATA

CD3LOSSY100KEV5KPR_AvgFuncsPerOrg.xls--Excel file containing raw data for average number of functions per organism
CD3LOSSY100KEV5KPR_AvgExecPerOrgPreEndExt.xls--Excel file containing raw data for average number of function executions per organism
CD3LOSSY100KEV5KPR_generation_update.xls--Excel file containing raw data for average generations per update LowDensityRecoverySequences.xls--Excel file containing sequences used to seed low-density recovery experiments


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