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Full Discussion: Awk with Multiple files
Top Forums Shell Programming and Scripting Awk with Multiple files Post 302581306 by rafir on Monday 12th of December 2011 06:58:50 PM
Old 12-12-2011
Awk with Multiple files

Hello,

I wanted to know the best way to do some matching between two files. I am currently using awk.

Example Question: If column 4 from file A is contained in column 1 from file B. Print the whole row from file A of mix of information from both files. i.e.

File A
Code:
chr1	1104384	1104467	hsa-mir-429
chr1	21314806	21314925	hsa-mir-1256
chr1	23189651	23189719	hsa-mir-4253
chr1	28833876	28834083	U17a

File B
Code:
name              start end acc
"hsa-mir-429-5p"	6 27	"MIMAT0000062"
"hsa-mir-429-3p"	57 77	"MIMAT0004481"
"hsa-mir-4253"	5 26	"MIMAT0000062"
"hsa-mir-1256-3p"	50 71	"MIMAT0010195"

Output
Code:
chr1	1104384	1104467	hsa-mir-429  "hsa-mir-429-5p"	6 27	"MIMAT0000062"
chr1	1104384	1104467	hsa-mir-429 "hsa-mir-429-3p"	57 77	"MIMAT0004481"
chr1	21314806	21314925	hsa-mir-1256 "hsa-mir-1256-3p"	50 71	"MIMAT0010195"
chr1	23189651	23189719	hsa-mir-4253 "hsa-mir-4253"    5 26	"MIMAT0000062"

Moderator's Comments:
Mod Comment How to use code tags

Last edited by Franklin52; 12-13-2011 at 04:09 AM.. Reason: Please use code tags for code and data samples, thank you
 

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COLRM(1)						    BSD General Commands Manual 						  COLRM(1)

NAME
colrm -- remove columns from a file SYNOPSIS
colrm [start [stop]] DESCRIPTION
The colrm utility removes selected columns from the lines of a file. A column is defined as a single character in a line. Input is read from the standard input. Output is written to the standard output. If only the start column is specified, columns numbered less than the start column will be written. If both start and stop columns are spec- ified, columns numbered less than the start column or greater than the stop column will be written. Column numbering starts with one, not zero. Tab characters increment the column count to the next multiple of eight. Backspace characters decrement the column count by one. ENVIRONMENT
The LANG, LC_ALL and LC_CTYPE environment variables affect the execution of colrm as described in environ(7). EXIT STATUS
The colrm utility exits 0 on success, and >0 if an error occurs. SEE ALSO
awk(1), column(1), cut(1), paste(1) HISTORY
The colrm command appeared in 3.0BSD. BSD
August 4, 2004 BSD
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