arithmetic operations on 1 column of a file


 
Thread Tools Search this Thread
Top Forums UNIX for Dummies Questions & Answers arithmetic operations on 1 column of a file
# 1  
Old 12-10-2010
arithmetic operations on 1 column of a file

Hi,

I have a file with thousands of lines like this:
Code:
Chr1    477515    .    ACCCC    ACCC    17.7    .    INDEL;DP=17;AF1=1;CI95=0.5,1;DP4=0,1,0,3;MQ=32;PV4=1,0.036,1,1
Chr1    481987    .    A    AAAT    62    .    INDEL;DP=11;AF1=1;CI95=0.5,1;DP4=0,0,1,3;MQ=41

I want to make a file with the sum of the first 2 numbers after DP4 in one column and the sum of the last two numbers of DP4 (before ;MQ...) in another column. How can I do that simply with some unix commands?

Expected output (for the two example lines above):
Code:
1 3
0 4


Last edited by Scott; 12-10-2010 at 01:05 PM.. Reason: Please use code tags
# 2  
Old 12-10-2010
To keep ip simple, I'd use sed to strip it and awk to sum it:
Code:
$ sed "s/.*DP4=//;s/;.*//" file1 | awk -F, '{print $1+$2,$3+$4}'
1 3
0 4

# 3  
Old 12-10-2010
And to make it a bit more complex Smilie
Code:
awk -F'[=,]' '$1=="DP4"{print $2+$3,$4+$5}' RS=\; file

 
Login or Register to Ask a Question

Previous Thread | Next Thread

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

Mathematical Operations on Column

Hi All, I want to perform a mathematical operation on column. Can anyone please help? Here is the sample of operation to be performed: 123 996 100 123 996 200 123 996 200 2015-09-21 123 996 100 123 996 200 123 996 100 What I want is to multiple all values of column # 3 by 100 and... (3 Replies)
Discussion started by: Zaib
3 Replies

2. Shell Programming and Scripting

Shell arithmetic : operations on decimal points

i am having a varialbe a , which is input to my file i want to multiply this input with value .43, and assign it to variable b. i tried it as below: #!/bin/sh a=$1 b=`expr $1\*0.43` echo b=$b error : expr: non-integer argument Please tell me , how to do this. Thanks (10 Replies)
Discussion started by: rishifrnds
10 Replies

3. Shell Programming and Scripting

Performing arithmetic operations on output of `wc -l`

Hi I want to perform arithmetic operations on output of `wc -l`. for example user046@sshell ~ $ ls -l total 0 where "total 0" will increase one line in wc -l filecount=`ls -l | wc -l` here $filecount will be 1 but is should be 0 how to get rid of it ? (1 Reply)
Discussion started by: anandgodse
1 Replies

4. UNIX for Dummies Questions & Answers

Multiple arithmetic operations in a single line

hi, I want to do multiple arithmetic operations in a single line. I tried with the following line total_size=`expr ($total_size + $file_size) / 1024` this line is throwing me error. Im working on korn shell. Can i know how to do multiple arithmetic operations in a single line (2 Replies)
Discussion started by: midhun19
2 Replies

5. Shell Programming and Scripting

how to do arithmetic operations in one line command

I have a file like this product qty1 qty2 value cola 50 25 1 pepsi 100 75 2 muffin 25 30 0.5 would like to do the following operations with one line command 1) disply the line having "Qty1" greater than or equal to 50 2) display the line Qty1 - Qty2 ... (2 Replies)
Discussion started by: johnveslin
2 Replies

6. Shell Programming and Scripting

awk command: column operations

I have a txt file with two columns Freq Loss 10 30 20 40 30 10 40 50 50 60i have used the below code to get the minimum value out of this array in second cloumn. awk 'NR==N{min=$N;max=$N}NR>N{if ($N>max){max=$N};if ($N<min){min=$N}}END {print... (3 Replies)
Discussion started by: shashi792
3 Replies

7. Shell Programming and Scripting

Arithmetic operations in bash,ksh,sh

Guys, The below expression is valid in which shells (sh,ksh,bash,csh)? VAR1=2 VAR2=$(($VAR1 -2)) Thanks (1 Reply)
Discussion started by: rprajendran
1 Replies

8. Shell Programming and Scripting

Need help is manipulating a file with some arithmetic operations using bash script

Friends, I have a file with contents like: interface Serial0/4/0/0/1/1/1/1:0 encapsulation mfr multilink group 101 Now I need to manipulate the file in such a way that to all the numbers less than 163, 63 gets added and to all numbers greater than 163, 63 gets deducted.(The numbers... (2 Replies)
Discussion started by: shrijith1
2 Replies

9. Shell Programming and Scripting

problem in arithmetic operations

hello all, i am having a variable with a value of 0000010000 and if i add the variable with some no: suppose i=0000010000 n=`expr $i + 1` echo $n the output i am reciving is 10001 .it deletes all the zeros but i need result as 0000010001.. please help me... thanks in... (3 Replies)
Discussion started by: ithirak17
3 Replies

10. Shell Programming and Scripting

File operations

Hi there, I want some help on scripting regarding file processing. I have a scenario in which I have 10 files. (file1.txt, file2.txt....) and they are in paricular format. I want to read these files and append some text lines at the begining of each file and write this updated contents of... (2 Replies)
Discussion started by: chiragmistry21
2 Replies
Login or Register to Ask a Question

Featured Tech Videos