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| Clone Mass | Clones in CloneSet | Parameter Count | Clone Similarity | Syntax Category [Sequence Length] |
|---|---|---|---|---|
| 6 | 7 | 6 | 0.957 | or_test |
| Clone Abstraction | Parameter Bindings |
| Clone Instance (Click to see clone) | Line Count | Source Line | Source File |
|---|---|---|---|
| 1 | 6 | 27 | Bio/Align/Applications/_Clustalw.py |
| 2 | 6 | 33 | Bio/Align/Applications/_Clustalw.py |
| 3 | 6 | 39 | Bio/Align/Applications/_Clustalw.py |
| 4 | 6 | 94 | Bio/Align/Applications/_Clustalw.py |
| 5 | 6 | 217 | Bio/Align/Applications/_Clustalw.py |
| 6 | 6 | 311 | Bio/Align/Applications/_Clustalw.py |
| 7 | 6 | 317 | Bio/Align/Applications/_Clustalw.py |
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_Option(["-infile","-INFILE","INFILE","infile"],["input","file"],None,False,"Input sequences.",True) |
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_Option(["-profile1","-PROFILE1","PROFILE1","profile1"],["input","file"],None,False,"Profiles (old alignment).",True) |
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_Option(["-profile2","-PROFILE2","PROFILE2","profile2"],["input","file"],None,False,"Profiles (old alignment).",True) |
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_Option(["-outfile","-OUTFILE","OUTFILE","outfile"],["input","file"],None,False,"Output sequence alignment file name",True) |
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# ***Multiple Alignments:***
_Option(["-newtree","-NEWTREE","NEWTREE","newtree"],["output","file"],None,False,"Output file name for newly created guide tree",True)
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_Option(["-newtree1","-NEWTREE1","NEWTREE1","newtree1"],["output","file"],None,False,"Output file name for new guide tree of profile1",True) |
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_Option(["-newtree2","-NEWTREE2","NEWTREE2","newtree2"],["output","file"],None,False,"Output file for new guide tree of profile2",True) |
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# ***Multiple Alignments:*** _Option([ [[#variable774d7e60]], [[#variable3058ede0]], [[#variable3058ee20]], [[#variable3058eb80]]],[ [[#variable77a8b7c0]],"file"],None,False, [[#variable774d7e80]],True) |
| CloneAbstraction |
| Parameter Index | Clone Instance | Parameter Name | Value |
|---|---|---|---|
| 1 | 1 | [[#774d7e60]] | "-newtree2" |
| 1 | 2 | [[#774d7e60]] | "-newtree1" |
| 1 | 3 | [[#774d7e60]] | "-newtree" |
| 1 | 4 | [[#774d7e60]] | "-outfile" |
| 1 | 5 | [[#774d7e60]] | "-profile2" |
| 1 | 6 | [[#774d7e60]] | "-profile1" |
| 1 | 7 | [[#774d7e60]] | "-infile" |
| 2 | 1 | [[#3058ede0]] | "-NEWTREE2" |
| 2 | 2 | [[#3058ede0]] | "-NEWTREE1" |
| 2 | 3 | [[#3058ede0]] | "-NEWTREE" |
| 2 | 4 | [[#3058ede0]] | "-OUTFILE" |
| 2 | 5 | [[#3058ede0]] | "-PROFILE2" |
| 2 | 6 | [[#3058ede0]] | "-PROFILE1" |
| 2 | 7 | [[#3058ede0]] | "-INFILE" |
| 3 | 1 | [[#3058ee20]] | "NEWTREE2" |
| 3 | 2 | [[#3058ee20]] | "NEWTREE1" |
| 3 | 3 | [[#3058ee20]] | "NEWTREE" |
| 3 | 4 | [[#3058ee20]] | "OUTFILE" |
| 3 | 5 | [[#3058ee20]] | "PROFILE2" |
| 3 | 6 | [[#3058ee20]] | "PROFILE1" |
| 3 | 7 | [[#3058ee20]] | "INFILE" |
| 4 | 1 | [[#3058eb80]] | "newtree2" |
| 4 | 2 | [[#3058eb80]] | "newtree1" |
| 4 | 3 | [[#3058eb80]] | "newtree" |
| 4 | 4 | [[#3058eb80]] | "outfile" |
| 4 | 5 | [[#3058eb80]] | "profile2" |
| 4 | 6 | [[#3058eb80]] | "profile1" |
| 4 | 7 | [[#3058eb80]] | "infile" |
| 5 | 1 | [[#77a8b7c0]] | "output" |
| 5 | 2 | [[#77a8b7c0]] | "output" |
| 5 | 3 | [[#77a8b7c0]] | "output" |
| 5 | 4 | [[#77a8b7c0]] | "input" |
| 5 | 5 | [[#77a8b7c0]] | "input" |
| 5 | 6 | [[#77a8b7c0]] | "input" |
| 5 | 7 | [[#77a8b7c0]] | "input" |
| 6 | 1 | [[#774d7e80]] | "Output file for new guide tree of profile2" |
| 6 | 2 | [[#774d7e80]] | "Output file name for new guide tree of profile1" |
| 6 | 3 | [[#774d7e80]] | "Output file name for newly created guide tree" |
| 6 | 4 | [[#774d7e80]] | "Output sequence alignment file name" |
| 6 | 5 | [[#774d7e80]] | "Profiles (old alignment)." |
| 6 | 6 | [[#774d7e80]] | "Profiles (old alignment)." |
| 6 | 7 | [[#774d7e80]] | "Input sequences." |