CloneSet222


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Clone
Mass
Clones in
CloneSet
Parameter
Count
Clone
Similarity
Syntax Category
[Sequence Length]
4260.972test_plus
Clone AbstractionParameter Bindings
Clone Instance
(Click to see clone)
Line CountSource Line
Source File
1498
Bio/Blast/Applications.py
26233
Bio/Blast/Applications.py
Clone Instance
1
Line Count
4
Source Line
98
Source File
Bio/Blast/Applications.py

           _Option(["-G","gap_open"],["input"],None,0,"Gap open penalty",False),_Option(["-E","gap_extend"],["input"],None,0,"Gap extension penalty",False)


Clone Instance
2
Line Count
6
Source Line
233
Source File
Bio/Blast/Applications.py

           #Note -N is also in blastpgp, but not blastall
           _Option(["-N","nbits_gapping"],["input"],None,0,"Number of bits to trigger gapping.",False),

           #Note blastall and blastpgp wrappers have -P with name "passes".
           #If this is the same thing, we should be consistent!
           _Option(["-P","multihit"],["input"],None,0,"0 for multiple hit, 1 for single hit",False)


Clone AbstractionParameter Count: 6Parameter Bindings

#Note -N is also in blastpgp, but not blastall
_Option([ [[#variable77abdc40]], [[#variable77abdb40]]],["input"],None,0, [[#variable77abcee0]],False),
                                                                                                       #Note blastall and blastpgp wrappers have -P with name "passes".
                                                                                                       #If this is the same thing, we should be consistent!
                                                                                                       _Option([ [[#variable77abdba0]], [[#variable77abc880]]],["input"],None,0, [[#variable77abdb20]],False)
 

CloneAbstraction
Parameter Bindings
Parameter
Index
Clone
Instance
Parameter
Name
Value
11[[#77abdc40]]
"-G" 
12[[#77abdc40]]
"-N" 
21[[#77abdb40]]
"gap_open" 
22[[#77abdb40]]
"nbits_gapping" 
31[[#77abcee0]]
"Gap open penalty" 
32[[#77abcee0]]
"Number of bits to trigger gapping." 
41[[#77abdba0]]
"-E" 
42[[#77abdba0]]
"-P" 
51[[#77abc880]]
"gap_extend" 
52[[#77abc880]]
"multihit" 
61[[#77abdb20]]
"Gap extension penalty" 
62[[#77abdb20]]
"0 for multiple hit, 1 for single hit"