Autogenerated Tag Syntax Documentation:
This is XML that calls RosettaES (aka the loop grower)
References and author information for the FragmentExtension mover:
FragmentExtension Mover's citation(s): Frenz B, Walls AC, Egelman EH, Veesler D, and DiMaio F. (2017). RosettaES: a sampling strategy enabling automated interpretation of difficult cryo-EM maps. Nat Meth 14(8):797-800. doi: 10.1038/nmeth.4340.
<FragmentExtension name="(&string;)" fasta="(&string;)"
beamwidth="(32 &non_negative_integer;)"
fragtrials="(200 &non_negative_integer;)" debug="(false &bool;)"
chainbreak="(1.5 ℜ)" continuous_weight="(0.3 ℜ)"
rms_cutoff="(1.5 ℜ)" fragcluster="(0 ℜ)"
masterbeamcutoff="(3.0 ℜ)" sheetbonus="(0.5 ℜ)"
sheet_tolerance="(0.7 ℜ)" sc_scale="(1 ℜ)"
windowdensweight="(30 ℜ)"
masterbeamwidth="(200 &non_negative_integer;)" rmswindow="(20 ℜ)"
rmscutoff="(1.5 ℜ)" steps="(10000 &non_negative_integer;)"
pcount="(0 &non_negative_integer;)"
sheetcriteria="(2 &non_negative_integer;)"
comparatorrounds="(100 &non_negative_integer;)"
beamscorecutoff="(0.85 ℜ)"
pack_min_cycles="(2 &non_negative_integer;)" dumpbeam="(false &bool;)"
dumperrors="(false &bool;)" dumpfinalbeam="(false &bool;)"
dumprms="(false &bool;)" dumpfragments="(false &bool;)"
direction="(1 &non_negative_integer;)" minimize="(true &bool;)"
nativegrow="(false &bool;)" parametercheck="(false &bool;)"
cenrot="(false &bool;)" writebeams="(true &bool;)"
readbeams="(false &bool;)" clustercheck="(false &bool;)"
rescorebeams="(false &bool;)" writelps="(true &bool;)"
fafilter="(true &bool;)" famin="(false &bool;)"
samplesheets="(true &bool;)" trackfragments="(false &bool;)"
filterprevious="(false &bool;)" rephasemap="(false &bool;)"
checksymm="(false &bool;)" asymmdump="(true &bool;)"
continuous_sheets="(false &bool;)" auto_stop="(false &bool;)"
greedy="(true &bool;)" read_from_file="(false &bool;)"
assign_incomplete="(false &bool;)"
looporder="(0 &non_negative_integer;)"
maxloopsize="(8 &non_negative_integer;)"
nfrags="(&nnegative_int_cslist;)" fraglens="(&nnegative_int_cslist;)"
fragmelt="(2 &non_negative_integer;)"
minmelt="(15 &non_negative_integer;)" storedbeams="(&string;)"
filterbeams="(&string;)" coordfile="(&string;)"
skeletonfile="(&string;)" scorefxn="(&string;)" censcorefxn="(&string;)"
cenrotscorefxn="(&string;)" >
<Fragments fragfile="(&string;)" />
</FragmentExtension>
Subtag Fragments: Name of the fragment file