Sponsored Content
Top Forums Shell Programming and Scripting Split column using awk in a text file Post 302811119 by RudiC on Thursday 23rd of May 2013 04:34:06 AM
Old 05-23-2013
Please use code tags, not quote tags.
Try this:
Code:
awk     '       {n  = split ($8,TMP,";")
                 $8 = ""
                 for (i=1; i<=n; i++)
                        if (match (TMP[i], /^DP=|^MQ=|^SNPEFF/)) {sub (/^.*=/,"",TMP[i]); $8 = $8 ($8?"\t":"") TMP[i]}
                }
         1
        ' FS="\t" file
chr1 403111 . G A 42 . 34    53    INTERGENIC    NONE    MODIFIER GT:GQ:PL 0/1:75:72,0,118 SAM
       
chr1 412573 . A C 2758.77 . 71    58.36    INTERGENIC    NONE    MODIFIER GT:ADP:GQ:PL1/1:0,71:71:99:2787,214,0 GATKSAM

This User Gave Thanks to RudiC For This Post:
 

10 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

Split a file with no pattern -- Split, Csplit, Awk

I have gone through all the threads in the forum and tested out different things. I am trying to split a 3GB file into multiple files. Some files are even larger than this. For example: split -l 3000000 filename.txt This is very slow and it splits the file with 3 million records in each... (10 Replies)
Discussion started by: madhunk
10 Replies

2. Shell Programming and Scripting

How to split a fixed width text file into several ones based on a column value?

Hi, I have a fixed width text file without any header row. One of the columns contains a date in YYYYMMDD format. If the original file contains 3 dates, I want my shell script to split the file into 3 small files with data for each date. I am a newbie and need help doing this. (14 Replies)
Discussion started by: bhanja_trinanja
14 Replies

3. Shell Programming and Scripting

using awk to substitute data in a column delimited text file

using awk to substitute data in a column delimited text file hello i would like to use awk to do the following calculation from the following snippet. input file C;2390 ;CV BOUILLOTTE 2L 2FACES NERVUREES ;1.00 ;3552612239004;13417 ;25 ;50 ; 12;50000 ; ; ... (3 Replies)
Discussion started by: iindie
3 Replies

4. UNIX for Dummies Questions & Answers

Using awk to log transform a column in a tab-delimited text file?

How do I use awk to log transform the fifth column of a tab-delimited text file? Thanks! (1 Reply)
Discussion started by: evelibertine
1 Replies

5. Shell Programming and Scripting

Split text separated by ; in a column into multiple columns

Hi, I need help to split a long text in a column which is separated by ; and i need to print them out in multiple columns. My input file is tab-delimited and has 11 columns as below:- aRg02004 21452 asdfwf 21452 21452 4.6e-29 5e-29 -1 3 50 ffg|GGD|9009 14101.10 High class -node. ; ffg|GGD|969... (3 Replies)
Discussion started by: redse171
3 Replies

6. Shell Programming and Scripting

awk to sum a column based on duplicate strings in another column and show split totals

Hi, I have a similar input format- A_1 2 B_0 4 A_1 1 B_2 5 A_4 1 and looking to print in this output format with headers. can you suggest in awk?awk because i am doing some pattern matching from parent file to print column 1 of my input using awk already.Thanks! letter number_of_letters... (5 Replies)
Discussion started by: prashob123
5 Replies

7. Shell Programming and Scripting

How to split a file into column with awk?

The following is my code nawk -F',' ' BEGIN { printf "MSISDN,IMSI,NAM,TS11,TS21,TS22,OBO,OBI,BAIC,BAOC,BOIC,BOIEXH,APNID0,APNID1,APNID2,APNID3,APNID0,CSP,RSA\n" } { for(i=1; i<=NF; i++) { split($i,a,":") gsub(" ","", a) printf "%s;",a } printf "\n" }'HLR_DUMP_BZV >> HLR_full This is... (1 Reply)
Discussion started by: gillesi
1 Replies

8. Shell Programming and Scripting

Awk: split column if special characters

Hi, I've data like these: Gene1,Gene2 snp1 Gene3 snp2 Gene4 snp3 I'd like to split line if comma and then print remaining information for the respective gene. My code: awk '{ if($1 ~ /,/){ n = split($0, t, ",") (7 Replies)
Discussion started by: genome
7 Replies

9. Shell Programming and Scripting

awk split columns to row after N number of column

I want to split this with every 5 or 50 depend on how much data the file will have. And remove the comma on the end Source file will have 001,0002,0003,004,005,0006,0007,007A,007B,007C,007E,007F,008A,008C Need Output from every 5 tab and remove the comma from end of each row ... (4 Replies)
Discussion started by: ranjancom2000
4 Replies

10. UNIX for Beginners Questions & Answers

Using awk to split a column into two columns

Hi, I am trying to split the following output into two columns, where each column has Source: Destination: OUTPUT TO FILTER $ tshark -r Capture_without_mtr.pcap -V | awk '/ (Source|Destination): /' | more Source: x.x.x.x Destination: x.x.x.x Source:... (2 Replies)
Discussion started by: sand1234
2 Replies
PAPS(1) 						      General Commands Manual							   PAPS(1)

NAME
paps - UTF-8 to PostScript converter using Pango SYNOPSIS
paps [options] files... DESCRIPTION
paps reads a UTF-8 encoded file and generates a PostScript language rendering of the file. The rendering is done by creating outline curves through the pango ft2 backend. OPTIONS
These programs follow the usual GNU command line syntax, with long options starting with two dashes (`-'). A summary of options is included below. --landscape Landscape output. Default is portrait. --columns=cl Number of columns output. Default is 1. Please notice this option isn't related to the terminal length as in a "80 culums terminal". --font=desc Set the font description. Default is Monospace 12. --rtl Do right to left (RTL) layout. --paper ps Choose paper size. Known paper sizes are legal, letter and A4. Default is A4. Postscript points Each postscript point equals to 1/72 of an inch. 36 points are 1/2 of an inch. --bottom-margin=bm Set bottom margin. Default is 36 postscript points. --top-margin=tm Set top margin. Default is 36 postscript points. --left-margin=lm Set left margin. Default is 36 postscript points. --right-margin=rm Set right margin. Default is 36 postscript points. --gutter-width=gw Set gutter width. Default is 40 postscript points. --help Show summary of options. --header Draw page header for each page. --markup Interpret the text as pango markup. --lpi Set the lines per inch. This determines the line spacing. --cpi Set the characters per inch. This is an alternative method of specifying the font size. --stretch-chars Indicates that characters should be stretched in the y-direction to fill up their vertical space. This is similar to the texttops behaviour. AUTHOR
paps was written by Dov Grobgeld <dov.grobgeld@gmail.com>. This manual page was written by Lior Kaplan <kaplan@debian.org>, for the Debian project (but may be used by others). April 17, 2006 PAPS(1)
All times are GMT -4. The time now is 06:56 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy