Package Bio :: Package Blast :: Module NCBIStandalone :: Class _Scanner

Class _Scanner

Scan BLAST output from blastall or blastpgp.

Tested with blastall and blastpgp v2.0.10, v2.0.11

Methods:
feed     Feed data into the scanner.

Instance Methods

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feed(S, handle, consumer)
Feed in a BLAST report for scanning.

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_scan_header(self, uhandle, consumer)

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_scan_rounds(self, uhandle, consumer)

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_scan_descriptions(self, uhandle, consumer)

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_scan_alignments(self, uhandle, consumer)

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_scan_pairwise_alignments(self, uhandle, consumer)

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_scan_one_pairwise_alignment(self, uhandle, consumer)

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_scan_alignment_header(self, uhandle, consumer)

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_scan_hsp(self, uhandle, consumer)

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_scan_hsp_header(self, uhandle, consumer)

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_scan_hsp_alignment(self, uhandle, consumer)

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_scan_masterslave_alignment(self, uhandle, consumer)

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_eof(self, uhandle)

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_scan_database_report(self, uhandle, consumer)

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_scan_parameters(self, uhandle, consumer)

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Method Details

[hide private]

feed(S, handle, consumer)

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Feed in a BLAST report for scanning.  handle is a file-like
object that contains the BLAST report.  consumer is a Consumer
object that will receive events as the report is scanned.