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| Clone Mass | Clones in CloneSet | Parameter Count | Clone Similarity | Syntax Category [Sequence Length] |
|---|---|---|---|---|
| 5 | 5 | 3 | 0.967 | compound_stmt |
| Clone Abstraction | Parameter Bindings |
| Clone Instance (Click to see clone) | Line Count | Source Line | Source File |
|---|---|---|---|
| 1 | 5 | 1376 | Bio/Blast/NCBIStandalone.py |
| 2 | 5 | 1382 | Bio/Blast/NCBIStandalone.py |
| 3 | 5 | 1388 | Bio/Blast/NCBIStandalone.py |
| 4 | 5 | 1394 | Bio/Blast/NCBIStandalone.py |
| 5 | 5 | 1400 | Bio/Blast/NCBIStandalone.py |
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def dropoff_1st_pass(self,line):
score,bits = _re_search("X1: (\\d+) \\(\\s*([0-9,.]+) bits\\)",line,"""I could not find the dropoff in line
%s""" %line)
self._params.dropoff_1st_pass = _safe_int(score),_safe_float(bits)
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def gap_x_dropoff(self,line):
score,bits = _re_search("X2: (\\d+) \\(\\s*([0-9,.]+) bits\\)",line,"""I could not find the gap dropoff in line
%s""" %line)
self._params.gap_x_dropoff = _safe_int(score),_safe_float(bits)
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def gap_x_dropoff_final(self,line):
score,bits = _re_search("X3: (\\d+) \\(\\s*([0-9,.]+) bits\\)",line,"""I could not find the gap dropoff final in line
%s""" %line)
self._params.gap_x_dropoff_final = _safe_int(score),_safe_float(bits)
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def gap_trigger(self,line):
score,bits = _re_search("S1: (\\d+) \\(\\s*([0-9,.]+) bits\\)",line,"""I could not find the gap trigger in line
%s""" %line)
self._params.gap_trigger = _safe_int(score),_safe_float(bits)
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def blast_cutoff(self,line):
score,bits = _re_search("S2: (\\d+) \\(\\s*([0-9,.]+) bits\\)",line,"""I could not find the blast cutoff in line
%s""" %line)
self._params.blast_cutoff = _safe_int(score),_safe_float(bits)
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def [[#variable5dbc3460]](self,line): score,bits = _re_search( [[#variable5dbc3400]],line, [[#variable5dbc3380]]%line) self._params. [[#variable5dbc3460]]= _safe_int(score),_safe_float(bits) |
| CloneAbstraction |
| Parameter Index | Clone Instance | Parameter Name | Value |
|---|---|---|---|
| 1 | 1 | [[#5dbc3460]] | blast_cutoff |
| 1 | 2 | [[#5dbc3460]] | gap_trigger |
| 1 | 3 | [[#5dbc3460]] | gap_x_dropoff_final |
| 1 | 4 | [[#5dbc3460]] | gap_x_dropoff |
| 1 | 5 | [[#5dbc3460]] | dropoff_1st_pass |
| 2 | 1 | [[#5dbc3400]] | "S2: (\\d+) \\(\\s*([0-9,.]+) bits\\)" |
| 2 | 2 | [[#5dbc3400]] | "S1: (\\d+) \\(\\s*([0-9,.]+) bits\\)" |
| 2 | 3 | [[#5dbc3400]] | "X3: (\\d+) \\(\\s*([0-9,.]+) bits\\)" |
| 2 | 4 | [[#5dbc3400]] | "X2: (\\d+) \\(\\s*([0-9,.]+) bits\\)" |
| 2 | 5 | [[#5dbc3400]] | "X1: (\\d+) \\(\\s*([0-9,.]+) bits\\)" |
| 3 | 1 | [[#5dbc3380]] | """I could not find the blast cutoff in line %s""" |
| 3 | 2 | [[#5dbc3380]] | """I could not find the gap trigger in line %s""" |
| 3 | 3 | [[#5dbc3380]] | """I could not find the gap dropoff final in line %s""" |
| 3 | 4 | [[#5dbc3380]] | """I could not find the gap dropoff in line %s""" |
| 3 | 5 | [[#5dbc3380]] | """I could not find the dropoff in line %s""" |