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| Clone Mass | Clones in CloneSet | Parameter Count | Clone Similarity | Syntax Category [Sequence Length] |
|---|---|---|---|---|
| 4 | 2 | 6 | 0.972 | test_plus |
| Clone Abstraction | Parameter Bindings |
| Clone Instance (Click to see clone) | Line Count | Source Line | Source File |
|---|---|---|---|
| 1 | 4 | 98 | Bio/Blast/Applications.py |
| 2 | 6 | 233 | Bio/Blast/Applications.py |
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_Option(["-G","gap_open"],["input"],None,0,"Gap open penalty",False),_Option(["-E","gap_extend"],["input"],None,0,"Gap extension penalty",False) |
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#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)
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#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)
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| CloneAbstraction |
| Parameter Index | Clone Instance | Parameter Name | Value |
|---|---|---|---|
| 1 | 1 | [[#77abdc40]] | "-G" |
| 1 | 2 | [[#77abdc40]] | "-N" |
| 2 | 1 | [[#77abdb40]] | "gap_open" |
| 2 | 2 | [[#77abdb40]] | "nbits_gapping" |
| 3 | 1 | [[#77abcee0]] | "Gap open penalty" |
| 3 | 2 | [[#77abcee0]] | "Number of bits to trigger gapping." |
| 4 | 1 | [[#77abdba0]] | "-E" |
| 4 | 2 | [[#77abdba0]] | "-P" |
| 5 | 1 | [[#77abc880]] | "gap_extend" |
| 5 | 2 | [[#77abc880]] | "multihit" |
| 6 | 1 | [[#77abdb20]] | "Gap extension penalty" |
| 6 | 2 | [[#77abdb20]] | "0 for multiple hit, 1 for single hit" |