Sponsored Content
Top Forums Shell Programming and Scripting fuzzy sequence match in a text file Post 302700011 by Chubler_XL on Wednesday 12th of September 2012 08:04:03 PM
Old 09-12-2012
Try this:

Code:
awk '
{ min=day
  max=skip?day+1:day+2
  if($1==mth && $2+0>=min && $2 <=max) {
    if($2+0>min)diff++
    skip=skip||$2+0==day+2
    day=$2+0
    out=start out"\n"$0
    start=""
    next
  }
  if(diff>2) printf "%s\n",out
  mth=$1
  start=$0
  day=$2+0
  diff=1; skip=0; out="" }
END {if(diff>2) printf "%s\n",out}' infile

Edit: rename variables for more clarity

Last edited by Chubler_XL; 09-12-2012 at 09:12 PM..
 

10 More Discussions You Might Find Interesting

1. Programming

Fuzzy Match Logic for Numerical Values

I have searched the internet (including these forums) and perhaps I'm not using the right wording. What I'm looking for is a function (preferably C) that analyzes the similitude of two numerical or near-numerical values, and returns either a true/false (match/nomatch) or a return code that... (4 Replies)
Discussion started by: marcus121
4 Replies

2. Shell Programming and Scripting

match text from two files and write to a third file

Hi all I have two files X.txt and Y.txt. Both file contains same number of sentences. The content of X.txt is The filter described above may be combined. and the content of Y.txt is The filter describ+ed above may be combin+ed. Some of the words are separated with "+"... (2 Replies)
Discussion started by: my_Perl
2 Replies

3. Shell Programming and Scripting

Insert text file only after the first match with SED

Hello, I'm new in Shell scripting but i should write a script, which inserts the license header out of a txt-File into the files in our Projekt. For the Java classes it runs without Problems but for XML files not. At xml-files i have to put the license Header after the xml-Header (?xml... (1 Reply)
Discussion started by: PhoenixONE
1 Replies

4. Shell Programming and Scripting

find common entries and match the number with long sequence and cut that sequence in output

Hi all, I have a file like this ID 3BP5L_HUMAN Reviewed; 393 AA. AC Q7L8J4; Q96FI5; Q9BQH8; Q9C0E3; DT 05-FEB-2008, integrated into UniProtKB/Swiss-Prot. DT 05-JUL-2004, sequence version 1. DT 05-SEP-2012, entry version 71. FT COILED 59 140 ... (1 Reply)
Discussion started by: manigrover
1 Replies

5. Shell Programming and Scripting

Inserting IDs from a text file into a sequence alignment file

Hi, I have one file with one column and several hundred entries File1: NA1 NA2 NA3And now I need to run a command within a mapping aligner tool to insert these sample names into a sequence alignment file (SAM) such that they look like this @RG ID:Library1 SM:NA1 PL:Illumina ... (7 Replies)
Discussion started by: nans
7 Replies

6. Shell Programming and Scripting

Match text from file 1 to file 2 and return specific text

I hope this makes sense and is possible. I am trying to match $1 of panel_genes.txt with $3 of RefSeqGene.txt and when a match is found the value in $6 of RefSeqGene.txt Example: ACTA2 is $1 of panel_genes.txt ACTA2 NM_001613.2 ACTA2 NM_001141945.1 awk 'FNR==NR {... (4 Replies)
Discussion started by: cmccabe
4 Replies

7. Shell Programming and Scripting

Display match or no match and write a text file to a directory

The below bash connects to a site, downloads a file, searches that file based of user input - could be multiple (all that seems to work). What I am not able to figure out is how to display on the screen match found or no match found" and write a file to a directory (C:\Users\cmccabe\Desktop\wget)... (4 Replies)
Discussion started by: cmccabe
4 Replies

8. Shell Programming and Scripting

Match all lines in file where specific text pattern is less than

In the below file I am trying to grep or similar, all lines where only AF= is less than 0.4.. Thank you :). grep grep "AF=" ,+ .4 file file 12 112036782 . T C 34.0248 PASS ... (3 Replies)
Discussion started by: cmccabe
3 Replies

9. Shell Programming and Scripting

Insert text after match in XML file

Having a little trouble getting this to work just right. I have xml files that i want to split some data. I have 2 <name> tags within the file I would like to take only the first tag and split the data. tag example. From this. TAB<Name>smith, john</Name> to TAB<Name>smith,... (8 Replies)
Discussion started by: whegra
8 Replies

10. Shell Programming and Scripting

Match text to lines in a file, iterate backwards until text or text substring matches, print to file

hi all, trying this using shell/bash with sed/awk/grep I have two files, one containing one column, the other containing multiple columns (comma delimited). file1.txt abc12345 def12345 ghi54321 ... file2.txt abc1,text1,texta abc,text2,textb def123,text3,textc gh,text4,textd... (6 Replies)
Discussion started by: shogun1970
6 Replies
CUT-DIFF(1)							  Cutter's manual						       CUT-DIFF(1)

NAME
cut-diff - show difference between 2 files with color SYNOPSIS
cut-diff [option ...] file1 file2 DESCRIPTION
cut-diff is a diff command that uses diff feature in Cutter. It shows difference with color. It's recommended that you use a normal diff(1) when you want to use with patch(1) or you don't need color. OPTIONS
--version cut-diff shows its own version and exits. -c [yes|true|no|false|auto], --color=[yes|true|no|false|auto] If 'yes' or 'true' is specified, cut-diff uses colorized output by escape sequence. If 'no' or 'false' is specified, cut-diff never use colorized output. If 'auto' or the option is omitted, cut-diff uses colorized output if available. The default is auto. -u, --unified cut-diff uses unified diff format. --context-lines=LINES Shows diff context around LINES. All lines are shown by default. When unified diff format is used, 3 lines are shown by default. --label=LABEL, -L=LABEL Uses LABEL as a header label. The first--label option value is used as file1's label and the second --label option value is used asfile2's label. Labels are the same as file names by default. EXIT STATUS
The exit status is 0 for success, non-0 otherwise. TODO: 0 for non-difference, 1 for difference and non-0 for errors. EXAMPLE
In the following example, cut-diff shows difference between file1 and file2: % cut-diff file1 file2 In the following example, cut-diff shows difference between file1 and file2 with unified diff format: % cut-diff -u file1 file2 SEE ALSO
diff(1) Cutter February 2011 CUT-DIFF(1)
All times are GMT -4. The time now is 07:19 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy