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Recipe: Wiggle Power Walk (S)
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Name: Wiggle Power Walk (S)
ID: 35599
Created on: Tue, 11/22/2011 - 11:30
Updated on: Tue, 11/22/2011 - 11:30
Description:

End game recipe used to maximise points out of a protein structure configuration. Faster than Wiggle Walk recipes.



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Joined: 09/22/2011
Groups: None
New and Improved Walker
Algorithm Type: Local Optimize (walker)
Duration: ~2½ minutes (with 120 segment proteins)
Limitations: Does not allow user input
Variants: Short (S), Medium (M), Long (L)

OK, this time I decided to do some thorough testing, rather than just going for the first thing that looks better than the last.

This recipe improves upon the Wiggle Walk recipes; it still does the same kind of walking compression routines, but it is definitely faster, with a different stride number used. After doing tests with recipes in strides of 2, 3, 4, and 5, 4 seems to be the optimal number. The main reason why Wiggle Power Walk is faster than the older recipes, is because there are less segments overall that are effectively being worked on directly.

For example, if you had a protein with 120 segments, the older Wiggle Walk recipes would freeze half that number (60), and wiggle the other half (alternating segments), working directly on all segments at once. Since the Wiggle Power Walk recipes stride by every 4 segments, they will instead freeze one-quarter of the total number of segments (30), and wiggle another quarter (30) in between, effectively working directly on half the total number of segments (60). This in turn, reduces the total time it takes to run the recipe, by approximately 50%.

There will be 3 different variants of the recipe; short (S), medium (M), and long (L). The main difference in the variants are the durations of each. Users can select which variants to use, based on their individual timing requirements. Hopefully, improvements to the Foldit LUA script interface will defeat this limitation in the future, by providing a customised input box for the user to enter a duration number.

This is the short variant, as denoted by the letter "S" in brackets. For more information on the other variants, please see "Children" at the right hand side.

Joined: 09/22/2011
Groups: None
OK, so after some further

OK, so after some further testing, this recipe doesn't quite do what it was meant to do, only working best when a protein structure isn't yet tight (i.e. hasn't yet been "walked" over / settled, and isn't heavily compressed).

So, until I can come up with something better, I suggest the following:

1st walk: Wiggle Power Walk (S) (this one)
Subsequent walks: Wiggle Walk 2
Final walks: Kuwaga's Repeat Settle 0.93, and then back to Wiggle Walk 2

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons