Login or Register to Ask a Question and Join Our Community

Sponsored Content
Full Discussion: Bash to verify each line in input for specific pattern
Top Forums Shell Programming and Scripting Bash to verify each line in input for specific pattern Post 302997665 by Don Cragun on Thursday 18th of May 2017 01:49:43 AM
Old 05-18-2017
Your description is rather confusing, I think the following may come closer to doing what you want:
Code:
awk '
NR == 1 {
	next
}
NR % 6 == 2 && /found expected header/ ||
NR % 6 == 3 && /found expected order of fields/ ||
NR % 6 == 4 && /R_Index is a number/ ||
NR % 6 == 5 && /PopFreqMax is valid/ ||
NR % 6 == 0 && /Quality is a character/ ||
NR % 6 == 1 && /HGMD and Sanger are valid/ {
	VAL++
}
NR % 6 == 1 {
	print " " $1, (VAL == 6) ? "is verified" : "is not verified"
	VAL = 0
}
' input.txt > verify.txt

If input.txt contains the sample input you provided in post #5 in this thread, the text produced by the above script in verify.txt exactly matches the output you said you wanted.
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

merge columns into one line after a specific pattern

Hi all, im a linux newbie, plz help! I have a file - box -------- Fox-2 -------- UF29 zip42 -------- zf-CW SNF2_N Heli_Z -------- Fox -------- Kel_1 box (3 Replies)
Discussion started by: sam_2921
3 Replies

2. Shell Programming and Scripting

Bash Script verify user input is not empty and is equal to a value

I need to create a script that has a user enter a value. I want to verify that the value is either 1,2, or 3. If it is not then I want them to try entering it again. I am using a while loop to force them to retry. I am able to test the input against 1,2, and 3, but when I test agains an... (4 Replies)
Discussion started by: spartiati
4 Replies

3. Shell Programming and Scripting

Added new line before a specific pattern problem asking

Input file: Sample1 Type pattern 842 3150 Sample1 Type range 842 3150 Sample1 Type pattern 842 1127 Sample1 Type option 842 1127 Sample1 Type length 1483 1603 Sample1 Type pattern 1483 1603 Sample1 Type length 1698 1747 Sample1 Type option 1698 1747 Sample1 Type length 1868 1935 Sample1... (13 Replies)
Discussion started by: patrick87
13 Replies

4. Programming

Print specific pattern line in c++

Input file: @HWI-BRUNOP1_header_1 GACCAATAAGTGATGATTGAATCGCGAGTGCTCGGCAGATTGCGATAAAC +HWI-BRUNOP1_header_1 TNTTJTTTETceJSP__VRJea`_NfcefbWe Desired output file: >HWI-BRUNOP1_header_1 GACCAATAAGTGATGATTGAATCGCGAGTGCTCGGCAGATTGCGATAAAC >HWI-BRUNOP1_header_2... (10 Replies)
Discussion started by: cpp_beginner
10 Replies

5. Shell Programming and Scripting

Insert new pattern in newline after the nth occurrence of a line pattern - Bash in Ubuntu 12.04

Hi, I am getting crazy after days on looking at it: Bash in Ubuntu 12.04.1 I want to do this: pattern="system /path1/file1 file1" new_pattern=" data /path2/file2 file2" file to edit: data.db - I need to search in the file data.db for the nth occurrence of pattern - pattern must... (14 Replies)
Discussion started by: Phil3759
14 Replies

6. Shell Programming and Scripting

Help to just print out specific line from an input file

Hi, I have a file which contains 2,500,500,432 lines. Can I know what command I should type in order just print out particular line from the input file? eg. I just wanna to see what is the contents at line 522,484,612. Thanks for advice. (3 Replies)
Discussion started by: perl_beginner
3 Replies

7. Shell Programming and Scripting

Replace string in line below specific pattern?

Hi, I'm trying to replace a string with sed, in a text file containing this pattern: location alpha value x location beta value y location gamma value y location delta value y location theta value z ... What I want to achieve is: Find location beta into text file... (1 Reply)
Discussion started by: TECK
1 Replies

8. Shell Programming and Scripting

Replace the line with specific pattern

Hello All I'm trying to change one string from a file contening this patern: xxxx-xxxx 4 numbers - end 4 other numbers This is a sample of the file: LDR 00679 am a2200205 4500 =001 3617 =008 030219s2000\\\\xxx|||||\||||\00|\0\spa\d =020 \\$a0211-1942 =041 \\$aCastellà =093 ... (5 Replies)
Discussion started by: ldiaz2106
5 Replies

9. Shell Programming and Scripting

Extract specific line in an html file starting and ending with specific pattern to a text file

Hi This is my first post and I'm just a beginner. So please be nice to me. I have a couple of html files where a pattern beginning with "http://www.site.com" and ending with "/resource.dat" is present on every 241st line. How do I extract this to a new text file? I have tried sed -n 241,241p... (13 Replies)
Discussion started by: dejavo
13 Replies

10. Shell Programming and Scripting

Need to cut a specific pattern from a line

Hello, I need to cut a specific pattern from a line irrespecitve of knowing field place. I am aware to cut field if you know the place of the field, but for me The sting place varies. 1468129514436,0,something_error,Non HTTP response code: java.net.URISyntaxException,Non HTTP response... (5 Replies)
Discussion started by: mirwasim
5 Replies

LEARN ABOUT CENTOS

gencfu

GENCFU(1)							 ICU 50.1.2 Manual							 GENCFU(1)

NAME

       gencfu - Generates Unicode Confusable data files

SYNOPSIS

       gencfu  [  -h, -?, --help ] [ -V, --version ] [ -c, --copyright ] [ -v, --verbose ] [ -d, --destdir destination ] [ -i, --icudatadir direc-
       tory ] -r, --rules rule-file -w, --wsrules whole-script-rule-file -o, --out output-file

DESCRIPTION

       gencfu reads confusable character definitions in the input file, which are plain text files containing confusable character definitions	in
       the  input format defined by Unicode UAX39 for the files confusables.txt and confusablesWholeScript.txt.  This source (.txt) format is also
       accepted by ICU spoof detectors.  The files must be encoded in utf-8 format, with or without a BOM.  Normally the output data file has  the
       .cfu extension.

OPTIONS

       -h, -?, --help
	      Print help about usage and exit.

       -V, --version
	      Print the version of gencfu and exit.

       -c, --copyright
	      Embeds the standard ICU copyright into the output-file.

       -v, --verbose
	      Display extra informative messages during execution.

       -d, --destdir destination
	      Set the destination directory of the output-file to destination.

       -i, --icudatadir directory
	      Look  for  any necessary ICU data files in directory.  For example, the file pnames.icu must be located when ICU's data is not built
	      as a shared library.  The default ICU data directory is specified by the environment variable ICU_DATA.  Most configurations of  ICU
	      do not require this argument.

       -r, --rules rule-file
	      The source file to read.

       -w, --wsrules whole-script-rule-file
	      The whole script source file to read.

       -o, --out output-file
	      The output data file to write.

VERSION

       1.0

COPYRIGHT

       Copyright (C) 2009 International Business Machines Corporation and others

ICU MANPAGE
							    24 May 2009 							 GENCFU(1)
All times are GMT -4. The time now is 02:29 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy