DRW+GAB

Find worst segments, tries several Deep Rebuilds, Fuzes the best solution then GAB (bands) the best fuzed solution,
Go to next worst segments etc.

A lot of options are available (after automatic check of pertinent options like mutable or not etc): segment min en max lengths, filters to start or not Fuze and GAB, all to loop or not, etc.

On cancel, restores the best structures and keeps track of the latest options in a note in segment 1. This allows to restart from previous activity.

The original author is Jean-Bob

He agreed to share this recipe once translated to English. Now he takes some long holliday.

All other versions are in Fench.

NEW to ver 1.11.6 = English version

L'Aliance Francophone hopes you will enjoy.

Please report bugs by copy-paste of what is written in Note of segment 1 and send it to this page.

Bruno

The original author is Jean-Bob

He agreed to share this recipe once translated to English. Now he takes some long holliday.

All other versions are in French.

NEW to ver 1.11.6 = English version

L'Aliance Francophone hopes you will enjoy.

Please report bugs by copy-paste of what is written in Note of segment 1 and send it to this page.

Bruno

This recipe combines the power of the rebuilds from DRW with the ability of GAB to increase the score by banding some segments.
Moreover, we made some improvements :
Whole prot : The possibility to rebuild and GAB one by one each segments of the protein, from segment 1 to segment max.
ScoreFilter : Select the minimum score required to launch GAB. Tick "Do not launch GAB" if you only want to rebuild and fuse.
Allow loss : Ebola will not restore the highscore if the score is included in this Loss threshold
FastFuse : Use 1 fuse instead of 5
Saving module : If you tick the "Start again since the last stop" box, Ebola will restart at the same segment as before stopping the last Ebola run. The data from the last run is stored in a note on segment 1
Language : The structure of the script permits to translate very easily the dialogs in many languages.

"More" options :
Rebuild Filter : Skip wiggle after the rebuild if the score is not included between these 2 values compared to the highscore (highscore-Minfilter Subscore management : Consider only one of these subscores to define the worse segments
ForceZone : Rebuild only a selected part of the protein. It is possible to enter many zones. Tick "Walk in the Forcezone" to rebuild from the first to the last segment each zones.
Launch automatically GAB : Launch automatically GAB if the threshold is exceeded
Precise band : Bands from GAB always start from next to the rebuild segments.
Display more information : Display more information in the output of the recipe

"GAB" options :
Number of critters, generations and allowed loss

Nevertheless, it takes a lot of time for each cycle. Excellent recipe for an overnight folding!

Now bilingual: L'Alliance Francophone and marie_s get it in French. Please contact me if you want other linguistic versions, or if you want to see it in French.

maxContSegs:10 forceZone, allowLoss:true scoringMode:Backbone curSeg:1 herd,renew:4,firstGen:10,breedBest:3,breedBastards:2,keepBest:5,newRandom:4,maxBadGen:6,shuffle:true,maxGen:2 mutateAlways:false contSegsMax:12 solsPerScore:2 qstabThresh:1 onlyMutable:false rebuildCI:0.8 contSegsMin:7 useLigand:false passGAB:false mutateOnceCI:0.21 scoreFilter:20 fastMode:false fastFuse:false rebuildLoops:true curArray,1|1:11|2:-51.082419025879|3:* backbone:-51.082419025879
,2|1:10|2:-49.729362534766|3:* backbone:-49.729362534766
,3|1:12|2:-44.991079450522|3:* backbone:-44.991079450522
,4|1:9|2:-44.057049192758|3:* backbone:-44.057049192758
,5|1:28|2:-43.071154704375|3:* clashing:-43.071154704375
,6|1:30|2:-42.216364566698|3:* clashing:-42.216364566698
,7|1:29|2:-41.344078640533|3:* clashing:-41.344078640533
,8|1:31|2:-40.272502654169|3:* clashing:-40.272502654169
,9|1:32|2:-39.373918562726|3:* clashing:-39.373918562726
,10|1:45|2:-38.797102945374|3:* backbone:-38.797102945374
,11|1:48|2:-38.456597845988|3:* backbone:-38.456597845988
,12|1:65|2:-37.656429921894|3:* clashing:-37.656429921894
,13|1:27|2:-37.302348497267|3:* clashing:-37.302348497267
,14|1:63|2:-37.195951382538|3:* clashing:-37.195951382538
rebuildBest:false mutateOnce:false minRebuild:5000 bands,maxUp:6.1,minChng:3,minDist:4,minStr:0.3,minLen:2,minSkip:5,maxStr:1.1,maxDn:6.9 critter,breedScore:-20,maxBands:5,keepConditions:true,minBands:2,totalLoss:90,keepScore:-50,maxLoss:0,giveUp:200 fuzeThresh:10 preciseBands:false fastQstab:true maxCI:1 resumeScript:false pullCI:0.55 subscores,1|1:clashing|2:packing|3:hiding|4:bonding|5:backbone|6:sidechain|7:disulfides|8:other,2|1:clashing|2:packing|3:backbone,3|1:hiding|2:bonding|3:sidechain,4|1:other,mode|1:All|2:Backbone|3:Sidechain|4:Other energy:false maxVal:-5 forceZoneStr: recipeName:EbolaRebuild stIndex:2 verbose:false wholeProt:false rebuildNum:30 autoGab:true segs:7 maxRebuild:0.001 lossThresh:200 gabThresh:30 zoneWalk:false numSegs:14

Ebola does'nt support puzzles with cuts (like Sepsis puzzles).

Thanks JDScienceTeacher !

does not recognise all lockpuzzles (not working on 713-.
See line 676

if rebuild does not gain, abandonning all solutions? (to be verified)

For puzzles like 722, the only option that work is "whole protein" (or second panel "forcezone" and "walk the forcezone")

Se recent best at the start so that you can reset the puzzle and start again where you want.

What are rebuild filters? What are forced zones?

Also, it would be amazing if this script could work on selected segments.

ignore those questions. sorry. i should of read all the comments before commenting.

Please post here your translation and give me your group name or your name. Then on next versions, you'll get the log in your language:
Copy-paste the following text and just translate (or even correct my english in) what is between " ", NOT changing the bizarre codes beginning with %, neither my comments after --
For non ascii letters, i'll have to change them to a special code later on, I'll find a solution)

i18n={
ask={
ok="OK",
cancel="Cancel",
options={
mainTitle="Ebola Rebuild options",
l1="Segments",
contSegsMin="Segments min",
contSegsMax="Segments max",
numSegs="Segments/zone",
wholeProt="Whole protein",
l2="Rebuild",
rebuildNum="Rebuild/zone",
solsPerScore="Solutions/zone",
l3="Threshold for GAB",
scoreFilter="GAB Filter",
passGAB ="Do not launch GAB",
l4="Score",
allowLoss="Allow loss",
lossThresh="loss threshold",
l5="Others",
rebuildLoops ="Transform protein to loop",
fastMode ="Only do rebuild+shake",
fastFuse="Fast Fuse (Faster, less points)",
mutateOnce="Mutate once",
resumeScript="Start again since the last stop",
advanced="More",
GABOptions="GAB"
},
gab={
mainTitle="GAB Options",
l1="Generations",
totalLoss="GAB max loss",
maxGen="Max generations",
l2="Max generations without gain for :",
renew="Start again",
maxBadGen="Stop",
l3="Critters",
firstGen="Crits 1r gén.",
maxLoss="Loss max/crit",
giveUp="Give up threshold",
keepConditions="Keep conditions",
fuzeThresh="Launch fuse threshold",
l4="Other",
l5="Use Ligand options : 0-Never, 1-Random, 2-Allways",
useLigand="Use Ligand"
},
advanced={
mainTitle="Advanced options",
l1="Rebuild filter",
minRebuild="Min filter",
maxRebuild="Max filter",
l2="Subscore management",
l3="Scores : 1-all, 2-backbone 3-sidechain, 4-other",
stIndex="Score type",
l4="Force zone",
l5="Format: Start1,End1-Start2,End2...",
forceZoneStr="Forced zone :",
zoneWalk ="Walk in the forced zone",
l6="Launch automatically GAB",
autoGab="Allow GAB to be automatically launched",
gabThresh ="Launch threshold",
l7="Others",
rebuildCI="Clash rebuild",
preciseBands="Precise bands",
rebuildBest="Rebuild best segments",
verbose="Display more informations"
}
},
recipe={
sb=">>> Still %.3f points to gain. Score : %.3f.",
gb1="Impossible to save bands. Disabling.",
gb2="Bands saved. Deleting.",
tsc=">> Gain : %.3f points. Score : %.3f.",
tso1="Solution %i. Score : %.3f.",
tso2a="Launching GAB.",
tso2b="Gain GAB auto : %.3f. Score : %.3f.",
tso3="Fail of the solution.",
tso4="Best solution. Score : %.3f.",
tso5="Fail of the rebuild, next zone.",
dlr="* Rebuild #%i.",
dlr2=">>> Microgain saved.",
is1="No segment fit to the requested critter.",
is2="Whole protein rebuild.",
is3="Script state loaded.",
e1=" %i contiguous segments zone.",
e2="Rebuild of segments %i-%i.",
e3="* Zone score : %.3f.",
e4="* Data :",
e5="WARNING: Loss allowed. Score : %.3f. Total : -%.3f.", -- BK 19/3/2013
e6="Total Ebola gain: %.3f. Score : %.3f.", --- ajoute Ebola BK 19/3/13
e7="Frozen segment detected. Next zone.",
m1="Script recovered.",
m2="Start of Ebola Rebuild. Mode : %q. Score : %.3f.",
m3a="Initial parameters treatment completed.",
m3b="Whole protein walking.",
fh="Creating %i random critters...",
critter="%s : %i bands.",
ab="* Impossible to create bands. GAB stopped.",
sh1="Launching %i critters...",
sh2a="Critter %s : %.3f.",
sh2b="Unrespected critter. Give up.",
bh="Breeding...",
g1="Launching GAB.",
g2="* Generation : %i. Score : %.3f. Gain : %.3f",
g3="Create a completely random generation…",
g4="* GAB final score : %.3f. Total Gain: %.3f.", -- idem BK
lw1="Loading Highscore....",
lw2="Loading secondary structure...",
lw3="Loading bands...",
lw4="Saving script state", -- added BK 21/3/13
de1="User stop.",
de2="unexpected error detected.",
de3="Error line: %i.",
de4="Error : %s."
}
}

Hi, I cancelled this in the selection interface after getting some points, thankyou. It seemed as if a log file was being displayed right across
the bottom section of the screen. I was able to hot key back to the standard interface and it disappeared.
Closed the puzzle and reopened - the strip was still there!
Ran another script and cancelled that and it disappeared.

Cheers
spmm

until it is working properly

I'm testing a new version with my team, in 2 languages and at least 2 OSs.

This version (latest maintenance = June) is not maintained anymore. It will be replaced when the new version will be strong enough.

Only option "Whole" does work on puzzles with locked segments

This is normal, it's the note of segment 1, used to restore the best structures and keep track of the latest options. This allows to restart from previous activity.
If you don't want to see this, don't display the notes on screen when running.

http://fold.it/portal/recipe/48385