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Top Forums Shell Programming and Scripting Shell script for changing the accession number of DNA sequences in a FASTA file Post 302881563 by RavinderSingh13 on Monday 30th of December 2013 10:34:04 AM
Old 12-30-2013
Hello,

One more approach with sed may help.

Code:
sed 's/\(^>.*_\)\(.*\)/my_desired_text_\2/g' file_name

Output will be as follows.

Code:
my_desired_text_45
atatagcaga
my_desired_text_46
atatagcagaatatatat



Thanks,
R. Singh

---------- Post updated at 11:34 AM ---------- Previous update was at 10:30 AM ----------

One more approach for same as follows.


Code:
awk -vs1="my_desired_ouput_" -F"_" '/^>/ {print s1$NF} !/^>/' file

Output will be as follows.

Code:
my_desired_ouput_45
atatagcaga
my_desired_ouput_46
atatagcagaatatatat


Thanks,
R. Singh
 

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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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