CloneSet75


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Clone
Mass
Clones in
CloneSet
Parameter
Count
Clone
Similarity
Syntax Category
[Sequence Length]
6760.957or_test
Clone AbstractionParameter Bindings
Clone Instance
(Click to see clone)
Line CountSource Line
Source File
1627
Bio/Align/Applications/_Clustalw.py
2633
Bio/Align/Applications/_Clustalw.py
3639
Bio/Align/Applications/_Clustalw.py
4694
Bio/Align/Applications/_Clustalw.py
56217
Bio/Align/Applications/_Clustalw.py
66311
Bio/Align/Applications/_Clustalw.py
76317
Bio/Align/Applications/_Clustalw.py
Clone Instance
1
Line Count
6
Source Line
27
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-infile","-INFILE","INFILE","infile"],["input","file"],None,False,"Input sequences.",True)


Clone Instance
2
Line Count
6
Source Line
33
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-profile1","-PROFILE1","PROFILE1","profile1"],["input","file"],None,False,"Profiles (old alignment).",True)


Clone Instance
3
Line Count
6
Source Line
39
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-profile2","-PROFILE2","PROFILE2","profile2"],["input","file"],None,False,"Profiles (old alignment).",True)


Clone Instance
4
Line Count
6
Source Line
94
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-outfile","-OUTFILE","OUTFILE","outfile"],["input","file"],None,False,"Output sequence alignment file name",True)


Clone Instance
5
Line Count
6
Source Line
217
Source File
Bio/Align/Applications/_Clustalw.py

            # ***Multiple Alignments:***
            _Option(["-newtree","-NEWTREE","NEWTREE","newtree"],["output","file"],None,False,"Output file name for newly created guide tree",True)


Clone Instance
6
Line Count
6
Source Line
311
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-newtree1","-NEWTREE1","NEWTREE1","newtree1"],["output","file"],None,False,"Output file name for new guide tree of profile1",True)


Clone Instance
7
Line Count
6
Source Line
317
Source File
Bio/Align/Applications/_Clustalw.py

            _Option(["-newtree2","-NEWTREE2","NEWTREE2","newtree2"],["output","file"],None,False,"Output file for new guide tree of profile2",True)


Clone AbstractionParameter Count: 6Parameter Bindings

# ***Multiple Alignments:***
_Option([ [[#variable774d7e60]], [[#variable3058ede0]], [[#variable3058ee20]], [[#variable3058eb80]]],[ [[#variable77a8b7c0]],"file"],None,False, [[#variable774d7e80]],True)
 

CloneAbstraction
Parameter Bindings
Parameter
Index
Clone
Instance
Parameter
Name
Value
11[[#774d7e60]]
"-newtree2" 
12[[#774d7e60]]
"-newtree1" 
13[[#774d7e60]]
"-newtree" 
14[[#774d7e60]]
"-outfile" 
15[[#774d7e60]]
"-profile2" 
16[[#774d7e60]]
"-profile1" 
17[[#774d7e60]]
"-infile" 
21[[#3058ede0]]
"-NEWTREE2" 
22[[#3058ede0]]
"-NEWTREE1" 
23[[#3058ede0]]
"-NEWTREE" 
24[[#3058ede0]]
"-OUTFILE" 
25[[#3058ede0]]
"-PROFILE2" 
26[[#3058ede0]]
"-PROFILE1" 
27[[#3058ede0]]
"-INFILE" 
31[[#3058ee20]]
"NEWTREE2" 
32[[#3058ee20]]
"NEWTREE1" 
33[[#3058ee20]]
"NEWTREE" 
34[[#3058ee20]]
"OUTFILE" 
35[[#3058ee20]]
"PROFILE2" 
36[[#3058ee20]]
"PROFILE1" 
37[[#3058ee20]]
"INFILE" 
41[[#3058eb80]]
"newtree2" 
42[[#3058eb80]]
"newtree1" 
43[[#3058eb80]]
"newtree" 
44[[#3058eb80]]
"outfile" 
45[[#3058eb80]]
"profile2" 
46[[#3058eb80]]
"profile1" 
47[[#3058eb80]]
"infile" 
51[[#77a8b7c0]]
"output" 
52[[#77a8b7c0]]
"output" 
53[[#77a8b7c0]]
"output" 
54[[#77a8b7c0]]
"input" 
55[[#77a8b7c0]]
"input" 
56[[#77a8b7c0]]
"input" 
57[[#77a8b7c0]]
"input" 
61[[#774d7e80]]
"Output file for new guide tree of profile2" 
62[[#774d7e80]]
"Output file name for new guide tree of profile1" 
63[[#774d7e80]]
"Output file name for newly created guide tree" 
64[[#774d7e80]]
"Output sequence alignment file name" 
65[[#774d7e80]]
"Profiles (old alignment)." 
66[[#774d7e80]]
"Profiles (old alignment)." 
67[[#774d7e80]]
"Input sequences."