View source for DOCK GA Development Goals

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! style="width:10%" !|Complete?
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|Fix bug that collapsed atom coordinates  || everywhere? nowhere? || everyone || No
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|Added Delimeter header ||conf_gen_ga || LEP || Yes
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|Fix xover only feature ||conf_gen_ga || LEP || No
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|Put in error messages for mut_rate > 1 || conf_gen_ga ||LEP || Yes
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|Manual user-defined mutation type ||conf_gen_ga || LEP || No
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==To Do List==
-xover-
guided based on score 
1. good v good
2. bad v good
3. bad v bad
nonexhaustive xover (pick subset of xover based on probability)
2-3 point xover at once
adaptive maintenance ensemble based on ensemble convergence
bring in new parents based on convergence
-Mutations-
adaptive mutation rate
pick location of mutation based on something
pick mutation type based on behavior of esemble
   too large boost deletion
   too small more add
   change ...boost replace/sub
mutation type selection based on probability vs ensemble
   complete x # y mutation so far so less prevalent etc
   3 layer subs do no work so don't do them
replace > 1 segment
-fitness-
turn on and off niching adaptive/extinction
reduce boost of fragments and all poor mols with niching
pareto/mulitobjective ga
-selection-
metropolis selection for tournament/roulette
adaptive keep #p and #o
-extinction- 
automated vs on convergence
-stop-
convergence
-which molecules are best-
-best first pruning - now uses descriptor score even if niching ned to delta to fitness/niching when used