write_blast

Biopiece: write_blast

Description

write_blast writes BLAST type Biopieces records as BLAST tabular output similarly to blastall -m 8. The BLAST type records can be from read_blast_tab.

Usage

... | write_blast [[options]]

Options

[-?         | --help]               #  Print full usage description.
[-x         | --no_stream]          #  Do not emit records.
[-o <file>  | --data_out=<file>]    #  Write result to file.
[-c         | --comment]            #  Print comment line           -  Default=no
[-I <file!> | --stream_in=<file!>]  #  Read input from stream file  -  Default=STDIN
[-O <file>  | --stream_out=<file>]  #  Write output to stream file  -  Default=STDOUT
[-Z         | --compress]           #  Compress output using gzip.
[-v         | --verbose]            #  Verbose output.

Examples

... | write_blast -x -c -o blast.tab     #  Write BLAST table with comment line to 'blast.tab'.
... | write_blast -x -Z -o blast.tab.gz  #  Write zipped BLAST table to 'blast.tab.gz'.

See also

read_blast_tab

blast_seq

Author

Martin Asser Hansen - Copyright (C) - All rights reserved.

[email protected]

August 2007

License

GNU General Public License version 2

http://www.gnu.org/copyleft/gpl.html

Help

write_blast is part of the Biopieces framework.

http://www.biopieces.org