fuzzy sequence match in a text file


 
Thread Tools Search this Thread
Top Forums Shell Programming and Scripting fuzzy sequence match in a text file
# 8  
Old 09-16-2012
Thanks for the clarification Alister,

In this implementation skip is supposed to be a boolean variable (only has value of zero or 1).

I use this "locked on" expression with booleans a lot in programming, and using the var=var?var:expr one-liner method is almost unconscious. So while explaining what is really happening, it's quite easy to forget about any illegal (non zero/1) values the flag could have.
Login or Register to Ask a Question

Previous Thread | Next Thread

10 More Discussions You Might Find Interesting

1. 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

2. 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

3. 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

4. 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

5. 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

6. 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

7. 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

8. 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

9. 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

10. 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
Login or Register to Ask a Question
Tcl_Backslash(3)					      Tcl Library Procedures						  Tcl_Backslash(3)

__________________________________________________________________________________________________________________________________________________

NAME
Tcl_Backslash - parse a backslash sequence SYNOPSIS
#include <tcl.h> char Tcl_Backslash(src, countPtr) ARGUMENTS
char *src (in) Pointer to a string starting with a backslash. int *countPtr (out) If countPtr is not NULL, *countPtr gets filled in with number of characters in the backslash sequence, includ- ing the backslash character. _________________________________________________________________ DESCRIPTION
The use of Tcl_Backslash is deprecated in favor of Tcl_UtfBackslash. This is a utility procedure provided for backwards compatibility with non-internationalized Tcl extensions. It parses a backslash sequence and returns the low byte of the Unicode character corresponding to the sequence. Tcl_Backslash modifies *countPtr to contain the number of characters in the backslash sequence. See the Tcl manual entry for information on the valid backslash sequences. All of the sequences described in the Tcl manual entry are sup- ported by Tcl_Backslash. SEE ALSO
Tcl(n), Tcl_UtfBackslash(3) KEYWORDS
backslash, parse Tcl 8.1 Tcl_Backslash(3)