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Full Discussion: How to grep paragraph?
Top Forums Shell Programming and Scripting How to grep paragraph? Post 302848021 by the_simpsons on Wednesday 28th of August 2013 10:18:32 AM
Old 08-28-2013
How to grep paragraph?

Hi, I have A file like this:

Code:
>Contig1
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEATATATAT
>Contig2
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATATATAT
>Contig3
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATAAATTTTTTCCCAATAT
ATGATATATATAEAATTTTTAATTTTT
TCCCAATCCCAAATATATATATATAT
AATATATATA
>contig1 length=130 dkfldf
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTC
>contig2 length=500 ldjfdlfjfdls
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATAAATTTTTTCCCAATAT
ATGATATATATAEAATTTTTAATTTTT
TCCCAATCCCAAATATATATATATAT
AATATATATA
....

If i have B file like this:
Code:
Contig2
Contig3
contig2
....

How could i get a C file like this:
Code:
>Contig2
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATATATAT
>Contig3
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATAAATTTTTTCCCAATAT
ATGATATATATAEAATTTTTAATTTTT
TCCCAATCCCAAATATATATATATAT
AATATATATA
>contig2 length=500 ldjfdlfjfdls
AAAAAAATTTTTTCCCAATATATGAT
ATATATAEAATTTTTAATTTTTTCCCA
ATCCCAAATAAATTTTTTCCCAATAT
ATGATATATATAEAATTTTTAATTTTT
TCCCAATCCCAAATATATATATATAT
AATATATATA

Thanks!!!

Moderator's Comments:
Mod Comment Use code tags please, see PM.

Last edited by zaxxon; 08-28-2013 at 11:21 AM.. Reason: code tags
 

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Locale::Language(3perl) 				 Perl Programmers Reference Guide				   Locale::Language(3perl)

NAME
Locale::Language - standard codes for language identification SYNOPSIS
use Locale::Language; $lang = code2language('en'); # $lang gets 'English' $code = language2code('French'); # $code gets 'fr' @codes = all_language_codes(); @names = all_language_names(); DESCRIPTION
The "Locale::Language" module provides access to standard codes used for identifying languages, such as those as defined in ISO 639. Most of the routines take an optional additional argument which specifies the code set to use. If not specified, the default ISO 639 two- letter codes will be used. SUPPORTED CODE SETS
There are several different code sets you can use for identifying languages. The ones currently supported are: alpha-2 This is the set of two-letter (lowercase) codes from ISO 639, such as 'he' for Hebrew. This code set is identified with the symbol "LOCALE_LANG_ALPHA_2". This is the default code set. alpha-3 This is the set of three-letter (lowercase) bibliographic codes from ISO 639, such as 'heb' for Hebrew. This code set is identified with the symbol "LOCALE_LANG_ALPHA_3". term This is the set of three-letter (lowercase) terminologic codes from ISO 639. This code set is identified with the symbol "LOCALE_LANG_TERM". ROUTINES
code2language ( CODE [,CODESET] ) language2code ( NAME [,CODESET] ) language_code2code ( CODE ,CODESET ,CODESET2 ) all_language_codes ( [CODESET] ) all_language_names ( [CODESET] ) Locale::Language::rename_language ( CODE ,NEW_NAME [,CODESET] ) Locale::Language::add_language ( CODE ,NAME [,CODESET] ) Locale::Language::delete_language ( CODE [,CODESET] ) Locale::Language::add_language_alias ( NAME ,NEW_NAME ) Locale::Language::delete_language_alias ( NAME ) Locale::Language::rename_language_code ( CODE ,NEW_CODE [,CODESET] ) Locale::Language::add_language_code_alias ( CODE ,NEW_CODE [,CODESET] ) Locale::Language::delete_language_code_alias ( CODE [,CODESET] ) These routines are all documented in the Locale::Codes man page. SEE ALSO
Locale::Codes Locale::Constants http://www.loc.gov/standards/iso639-2/ Source of the ISO 639 codes. AUTHOR
See Locale::Codes for full author history. Currently maintained by Sullivan Beck (sbeck@cpan.org). COPYRIGHT
Copyright (c) 1997-2001 Canon Research Centre Europe (CRE). Copyright (c) 2001-2010 Neil Bowers Copyright (c) 2010-2011 Sullivan Beck This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.14.2 2011-09-26 Locale::Language(3perl)
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