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Top Forums Shell Programming and Scripting awk to change specific string to new value if found in text file Post 302993056 by cmccabe on Monday 6th of March 2017 08:40:06 AM
Old 03-06-2017
awk to change specific string to new value if found in text file

I am trying to use awk to change a specific string in a field, if it is found, to another value. In the tab-delimited file the text in bold in $3 contains the string 23, which is always right before a ., if it is present.

I am trying to change that string to X, keeping the formatting and the name of the file the same. The awk below seems to change the formatting and may not be the best way. Thank you Smilie.

file
Code:
Input Variant	Errors	Chromosomal Variant	Coding Variant(s)
NM_004992.3:c.274G>T		NC_000023.10:g.153297761C>A	XM_005274683.1:c.-6G>T	XM_005274682.1:c.-6G>T	XM_005274681.1:c.274G>T	LRG_764t2:c.274G>T	NM_004992.3:c.274G>T	LRG_764t1:c.310G>T	NM_001110792.1:c.310G>T

awk
Code:
awk -F'\t' '{ $3 = ($3 == "23" ? X : $3) } 1' OFS="\t" file

desired output
Code:
Input Variant	Errors	Chromosomal Variant	Coding Variant(s)
NM_004992.3:c.274G>T		NC_0000X.10:g.153297761C>A	XM_005274683.1:c.-6G>T	XM_005274682.1:c.-6G>T	XM_005274681.1:c.274G>T	LRG_764t2:c.274G>T	NM_004992.3:c.274G>T	LRG_764t1:c.310G>T	NM_001110792.1:c.310G>T


Last edited by cmccabe; 03-06-2017 at 09:40 AM.. Reason: fixed format
 

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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) 2011-2012 Sullivan Beck This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.16.2 2012-10-11 Locale::Codes::LangExt(3pm)
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