Sponsored Content
Full Discussion: UNIX multiple column sort
Top Forums UNIX for Dummies Questions & Answers UNIX multiple column sort Post 302953189 by mitt on Tuesday 25th of August 2015 04:49:23 PM
Old 08-25-2015
UNIX multiple column sort

Hi,

I have a text file that has data like this

Code:
chr1    156106712       156106819       LMNA    8       +       1       147
chr1    156106712       156106819       LMNA    8       +       2       147
chr1    156106712       156106819       LMNA    8       +       3       148
chr1    156106712       156106819       LMNA    8       +       4       151
chr1    156106712       156106819       LMNA    8       +       5       151
chr1    156106712       156106819       LMNA    8       +       6       155
chr1    156106712       156106819       LMNA    8       +       7       155
chr1    10436603        10436645        KIF1B   46      +       1       207
chr1    10436603        10436645        KIF1B   46      +       2       207
chr1    10436603        10436645        KIF1B   46      +       3       211
chr1    10436603        10436645        KIF1B   46      +       4       212
chr1    10436603        10436645        KIF1B   46      +       5       212
chr1    10436603        10436645        KIF1B   46      +       6       212
chr1    10436603        10436645        KIF1B   46      +       7       208
chr1    10436603        10436645        KIF1B   46      +       8       207
chr1    10436603        10436645        KIF1B   46      +       9       207
chr1    10436603        10436645        KIF1B   46      +       10      207
chr1    10436603        10436645        KIF1B   46      +       11      205
chr1    10436603        10436645        KIF1B   46      +       12      202
chr1    10436603        10436645        KIF1B   46      +       13      199
chr1    10436603        10436645        KIF1B   46      +       14      199
chr1    10436603        10436645        KIF1B   46      +       15      198
chr1    10436603        10436645        KIF1B   46      +       16      198
chr1    10436603        10436645        KIF1B   46      +       17      198

I want an output to be sorted by the chromosome position then column 5 and 7

Code:
chr1    10436603        10436645        KIF1B   46      +       2       207
chr1    10436603        10436645        KIF1B   46      +       3       211
chr1    10436603        10436645        KIF1B   46      +       4       212
chr1    10436603        10436645        KIF1B   46      +       5       212
chr1    10436603        10436645        KIF1B   46      +       6       212
chr1    10436603        10436645        KIF1B   46      +       7       208
chr1    10436603        10436645        KIF1B   46      +       8       207
chr1    10436603        10436645        KIF1B   46      +       9       207
chr1    10436603        10436645        KIF1B   46      +       10      207
chr1    10436603        10436645        KIF1B   46      +       11      205
chr1    10436603        10436645        KIF1B   46      +       12      202
chr1    10436603        10436645        KIF1B   46      +       13      199
chr1    10436603        10436645        KIF1B   46      +       14      199
chr1    10436603        10436645        KIF1B   46      +       15      198
chr1    10436603        10436645        KIF1B   46      +       16      198
chr1    10436603        10436645        KIF1B   46      +       17      198
chr1    156106712       156106819       LMNA    8       +       1       147
chr1    156106712       156106819       LMNA    8       +       2       147
chr1    156106712       156106819       LMNA    8       +       3       148
chr1    156106712       156106819       LMNA    8       +       4       151
chr1    156106712       156106819       LMNA    8       +       5       151
chr1    156106712       156106819       LMNA    8       +       6       155
chr1    156106712       156106819       LMNA    8       +       7       155

How can I achieve this?

I tried sort -k1,1 -k2,2n but it did not work.Thanks in advance

Last edited by Don Cragun; 08-25-2015 at 06:09 PM.. Reason: Add CODE and ICODE tags.
 

10 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

Unix sort on multiple fields

Hello. I've read a few threads on how to sort on multiple fields, but I still can't get my file to sort correctly. I have a comma delimited .csv file will over a hundred fields. I want to sort it by field 2, field 62 and then field 61 (integer fields). input looks like this well swap field... (2 Replies)
Discussion started by: happy_cow
2 Replies

2. Shell Programming and Scripting

Question about sort specific column and print other column at the same time !

Hi, This is my input file: ali 5 usa abc abu 4 uk bca alan 6 brazil bac pinky 10 utah sdc My desired output: pinky 10 utah sdc alan 6 brazil bac ali 5 usa abc abu 4 uk bca Based on the column two, I want to do the descending order and print out other related column at the... (3 Replies)
Discussion started by: patrick87
3 Replies

3. UNIX for Dummies Questions & Answers

sort a unix file by 3rd column

Hi, Can anybody tell me how to sort a unix file by 3rd column and not by ltr? Please help Thanks in advance (2 Replies)
Discussion started by: vinnyvirk
2 Replies

4. Shell Programming and Scripting

How to sort a column in UNIX that is colon separated ":" ?

Experts, how to sort this fields with numerical order : -How to use the sort command in this case, I was thinking with -k but it is not working, lan5000 lan5000:1 lan5000:10 lan5000:11 lan5000:12 lan5000:13 lan5000:14 lan5000:15 lan5000:16 lan5000:17 ... (6 Replies)
Discussion started by: rveri
6 Replies

5. Shell Programming and Scripting

Sort based on Multiple Columns in UNIX

Hi, I would like to sort a list in different ways: 1> Unique based on Field 1 with highest Field 4 For Instance Input: 1678923450;11112222333344;11-1x;2_File.xml 1678923450;11112222333344;11-1x;5_File.xml 1234567890;11113333222244;11-1x;3_File.xml Output: ... (7 Replies)
Discussion started by: DevendraG
7 Replies

6. Shell Programming and Scripting

UNIX append field with comparing fields from multiple column

I have a csv dump from sql server that needs to be converted so it can be feed to another program. I already sorted on field 1 but there are multiple columns with same field 1 where it needs to be compared against and if it is same then append field 5. i.e from ANG SJ,0,B,LC22,LC22(0) BAT... (2 Replies)
Discussion started by: nike27
2 Replies

7. Shell Programming and Scripting

Passing multiple column values to UNIX variable

sqlplus -s $USER_ID@$SID/$PWD<<EOF>sql_1.txt set feedback off set heading off select 114032 as c_1 from dual ; EOF for i in `cat sql_1.txt` do sh script_1.sh $i Currently i am passing one column value to the single unix variable. How can i pass the values from 2... (2 Replies)
Discussion started by: rafa_fed2
2 Replies

8. UNIX for Dummies Questions & Answers

UNIX Sort on a field that spans multiple columns

New to unix. I need to sort the records of a file by a control number field. That field is in POS 16 through 28. How do I do that? There are no delimiters, or spaces to separate fields. See example below. Each line is a record. REC1CCYYMMDD0018888888888888ABCDE... (1 Reply)
Discussion started by: jclanc8
1 Replies

9. UNIX for Dummies Questions & Answers

Ls output sort on multiple column

Hi All, I have one requirement, where I need to have output of ls -l command sorted on 1) first on filename 2) last modified time ( descending ) - latest change first. I am not able to figure out how to do it.. Also I dont have a way to change Date display for ls -ltr command.. I am... (5 Replies)
Discussion started by: freakabhi
5 Replies

10. Shell Programming and Scripting

Assigning multiple column's value from Oracle query to multiple variables in UNIX

Hi All, I need to read values of 10 columns from oracle query and assign the same to 10 unix variables. The query will return only one record(row). I tried to append all these columns using a delimiter(;) in the select query and assign the same to a single variable(V) in unix. I thought I... (3 Replies)
Discussion started by: hkrishnan91
3 Replies
All times are GMT -4. The time now is 11:44 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy