| Previous CloneSet | Next CloneSet | Back to Main Report |
| Clone Mass | Clones in CloneSet | Parameter Count | Clone Similarity | Syntax Category [Sequence Length] |
|---|---|---|---|---|
| 6 | 7 | 6 | 0.962 | or_test |
| Clone Abstraction | Parameter Bindings |
| Clone Instance (Click to see clone) | Line Count | Source Line | Source File |
|---|---|---|---|
| 1 | 6 | 64 | Bio/Align/Applications/_Clustalw.py |
| 2 | 6 | 138 | Bio/Align/Applications/_Clustalw.py |
| 3 | 6 | 381 | Bio/Align/Applications/_Clustalw.py |
| 4 | 6 | 387 | Bio/Align/Applications/_Clustalw.py |
| 5 | 6 | 393 | Bio/Align/Applications/_Clustalw.py |
| 6 | 6 | 399 | Bio/Align/Applications/_Clustalw.py |
| 7 | 6 | 413 | Bio/Align/Applications/_Clustalw.py |
| ||||
_Option(["-bootstrap","-BOOTSTRAP","BOOTSTRAP","bootstrap"],["input"],
lambda x:isinstance(x,types.IntType),False,"Bootstrap a NJ tree (n= number of bootstraps; def. = 1000).",True)
|
| ||||
_Option(["-maxseqlen","-MAXSEQLEN","MAXSEQLEN","maxseqlen"],["input"],
lambda x:ininstance(x,types.IntType),False,"Maximum allowed input sequence length",True)
|
| ||||
_Option(["-helixendin","-HELIXENDIN","HELIXENDIN","helixendin"],["input"],
lambda x:isinstance(x,types.IntType),False,"Number of residues inside helix to be treated as terminal",True)
|
| ||||
_Option(["-helixendout","-HELIXENDOUT","HELIXENDOUT","helixendout"],["input"],
lambda x:isinstance(x,types.IntType),False,"Number of residues outside helix to be treated as terminal",True)
|
| ||||
_Option(["-strandendin","-STRANDENDIN","STRANDENDIN","strandendin"],["input"],
lambda x:isinstance(x,types.IntType),False,"Number of residues inside strand to be treated as terminal",True)
|
| ||||
_Option(["-strandendout","-STRANDENDOUT","STRANDENDOUT","strandendout"],["input"],
lambda x:isinstance(x,types.IntType),False,"number of residues outside strand to be treated as terminal",True)
|
| ||||
_Option(["-seed","-SEED","SEED","seed"],["input"],
lambda x:isinstance(x,types.IntType),False,"Seed number for bootstraps.",True)
|
| |||
_Option([ [[#variable5d01a2a0]], [[#variable5c2eb0a0]], [[#variable60d19940]], [[#variable60d19e80]]],["input"], lambda x: [[#variable60d19ec0]](x,types.IntType),False, [[#variable60d19ee0]],True) |
| CloneAbstraction |
| Parameter Index | Clone Instance | Parameter Name | Value |
|---|---|---|---|
| 1 | 1 | [[#5d01a2a0]] | "-bootstrap" |
| 1 | 2 | [[#5d01a2a0]] | "-maxseqlen" |
| 1 | 3 | [[#5d01a2a0]] | "-helixendin" |
| 1 | 4 | [[#5d01a2a0]] | "-helixendout" |
| 1 | 5 | [[#5d01a2a0]] | "-strandendin" |
| 1 | 6 | [[#5d01a2a0]] | "-strandendout" |
| 1 | 7 | [[#5d01a2a0]] | "-seed" |
| 2 | 1 | [[#5c2eb0a0]] | "-BOOTSTRAP" |
| 2 | 2 | [[#5c2eb0a0]] | "-MAXSEQLEN" |
| 2 | 3 | [[#5c2eb0a0]] | "-HELIXENDIN" |
| 2 | 4 | [[#5c2eb0a0]] | "-HELIXENDOUT" |
| 2 | 5 | [[#5c2eb0a0]] | "-STRANDENDIN" |
| 2 | 6 | [[#5c2eb0a0]] | "-STRANDENDOUT" |
| 2 | 7 | [[#5c2eb0a0]] | "-SEED" |
| 3 | 1 | [[#60d19940]] | "BOOTSTRAP" |
| 3 | 2 | [[#60d19940]] | "MAXSEQLEN" |
| 3 | 3 | [[#60d19940]] | "HELIXENDIN" |
| 3 | 4 | [[#60d19940]] | "HELIXENDOUT" |
| 3 | 5 | [[#60d19940]] | "STRANDENDIN" |
| 3 | 6 | [[#60d19940]] | "STRANDENDOUT" |
| 3 | 7 | [[#60d19940]] | "SEED" |
| 4 | 1 | [[#60d19e80]] | "bootstrap" |
| 4 | 2 | [[#60d19e80]] | "maxseqlen" |
| 4 | 3 | [[#60d19e80]] | "helixendin" |
| 4 | 4 | [[#60d19e80]] | "helixendout" |
| 4 | 5 | [[#60d19e80]] | "strandendin" |
| 4 | 6 | [[#60d19e80]] | "strandendout" |
| 4 | 7 | [[#60d19e80]] | "seed" |
| 5 | 1 | [[#60d19ec0]] | isinstance |
| 5 | 2 | [[#60d19ec0]] | ininstance |
| 5 | 3 | [[#60d19ec0]] | isinstance |
| 5 | 4 | [[#60d19ec0]] | isinstance |
| 5 | 5 | [[#60d19ec0]] | isinstance |
| 5 | 6 | [[#60d19ec0]] | isinstance |
| 5 | 7 | [[#60d19ec0]] | isinstance |
| 6 | 1 | [[#60d19ee0]] | "Bootstrap a NJ tree (n= number of bootstraps; def. = 1000)." |
| 6 | 2 | [[#60d19ee0]] | "Maximum allowed input sequence length" |
| 6 | 3 | [[#60d19ee0]] | "Number of residues inside helix to be treated as terminal" |
| 6 | 4 | [[#60d19ee0]] | "Number of residues outside helix to be treated as terminal" |
| 6 | 5 | [[#60d19ee0]] | "Number of residues inside strand to be treated as terminal" |
| 6 | 6 | [[#60d19ee0]] | "number of residues outside strand to be treated as terminal" |
| 6 | 7 | [[#60d19ee0]] | "Seed number for bootstraps." |