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Top Forums UNIX for Dummies Questions & Answers Finding specific series of strings or characters Post 302562654 by ctsgnb on Friday 7th of October 2011 02:35:55 PM
Old 10-07-2011
On of the way to get read off the trailing ">" is to pre-format your output that way :

Code:
nawk 'NR>1&&/^>/{sub(">",RS ">")}1' yourfile

You can then pipe your output and parse it using RS="" (i.e. "\n\n") as record separator :

Code:
nawk 'NR>1&&/^>/{sub(">",RS ">")}1' yourfile | nawk 'BEGIN{RS="";FS="\n"}$0!~/[-*]/'

Code:
$ cat f1
>Sequence1
AGACAGATGACAGTAGACAGAT-GACGATAGCAGT
>Sequence2
AGACAGATGACAGTAGACAGATAGACGATAGCAGT
>Sequence3
AGACAGATGACAGTAGACAGATCGACGATAGCAGT
>Sequence4
AGACAGATGA-AGTAGACAGATTGACGATAGCAGT
>Sequence5
AGAC*GATGA

Code:
$ nawk 'NR>1&&/^>/{sub(">",RS ">")}1' f1
>Sequence1
AGACAGATGACAGTAGACAGAT-GACGATAGCAGT

>Sequence2
AGACAGATGACAGTAGACAGATAGACGATAGCAGT

>Sequence3
AGACAGATGACAGTAGACAGATCGACGATAGCAGT

>Sequence4
AGACAGATGA-AGTAGACAGATTGACGATAGCAGT

>Sequence5
AGAC*GATGA

Code:
$ nawk 'NR>1&&/^>/{sub(">",RS ">")}1' f1 | nawk 'BEGIN{RS="";FS="\n"}$0!~/[-*]/'
>Sequence2
AGACAGATGACAGTAGACAGATAGACGATAGCAGT
>Sequence3
AGACAGATGACAGTAGACAGATCGACGATAGCAGT


Last edited by ctsgnb; 10-07-2011 at 03:41 PM..
 

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Locale::Codes::LangExt(3pm)				 Perl Programmers Reference Guide			       Locale::Codes::LangExt(3pm)

NAME
Locale::Codes::LangExt - standard codes for language extension identification SYNOPSIS
use Locale::Codes::LangExt; $lext = code2langext('acm'); # $lext gets 'Mesopotamian Arabic' $code = langext2code('Mesopotamian Arabic'); # $code gets 'acm' @codes = all_langext_codes(); @names = all_langext_names(); DESCRIPTION
The "Locale::Codes::LangExt" module provides access to standard codes used for identifying language extensions, such as those as defined in the IANA language registry. Most of the routines take an optional additional argument which specifies the code set to use. If not specified, the default IANA language registry codes will be used. SUPPORTED CODE SETS
There are several different code sets you can use for identifying language extensions. A code set may be specified using either a name, or a constant that is automatically exported by this module. For example, the two are equivalent: $lext = code2langext('acm','alpha'); $lext = code2langext('acm',LOCALE_LANGEXT_ALPHA); The codesets currently supported are: alpha This is the set of three-letter (lowercase) codes from the IANA language registry, such as 'acm' for Mesopotamian Arabic. This is the default code set. ROUTINES
code2langext ( CODE [,CODESET] ) langext2code ( NAME [,CODESET] ) langext_code2code ( CODE ,CODESET ,CODESET2 ) all_langext_codes ( [CODESET] ) all_langext_names ( [CODESET] ) Locale::Codes::LangExt::rename_langext ( CODE ,NEW_NAME [,CODESET] ) Locale::Codes::LangExt::add_langext ( CODE ,NAME [,CODESET] ) Locale::Codes::LangExt::delete_langext ( CODE [,CODESET] ) Locale::Codes::LangExt::add_langext_alias ( NAME ,NEW_NAME ) Locale::Codes::LangExt::delete_langext_alias ( NAME ) Locale::Codes::LangExt::rename_langext_code ( CODE ,NEW_CODE [,CODESET] ) Locale::Codes::LangExt::add_langext_code_alias ( CODE ,NEW_CODE [,CODESET] ) Locale::Codes::LangExt::delete_langext_code_alias ( CODE [,CODESET] ) These routines are all documented in the Locale::Codes::API man page. SEE ALSO
Locale::Codes The Locale-Codes distribution. Locale::Codes::API The list of functions supported by this module. http://www.iana.org/assignments/language-subtag-registry The IANA language subtag registry. AUTHOR
See Locale::Codes for full author history. Currently maintained by Sullivan Beck (sbeck@cpan.org). COPYRIGHT
Copyright (c) 2011-2013 Sullivan Beck This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.18.2 2013-11-04 Locale::Codes::LangExt(3pm)
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