Match read ID file 1 from file 2

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

awk to update file based on partial match in field1 and exact match in field2

I am trying to create a cronjob that will run on startup that will look at a list.txt file to see if there is a later version of a database using database.txt as the source. The matching lines are written to output. $1 in database.txt will be in list.txt as a partial match. $2 of database.txt...

2. Shell Programming and Scripting

Rename specific file extension in directory with match to another file in bash

I have a specific set (all ending with .bam) of downloaded files in a directory /home/cmccabe/Desktop/NGS/API/2-15-2016. What I am trying to do is use a match to $2 in name to rename the downloaded files. To make things a more involved the date of the folder is unique and in the header of name...

3. 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. Shell Programming and Scripting

Match pattern1 in file, match pattern2, substitute value1 in line

not getting anywhere with this an xml file contains multiple clients set up with same tags, different values. I need to parse the file for client foo, and change the value of tag "64bit" from false to true. cat clients.xml <Client type"FIX"> <ClientName>foo</ClientName>...

5. Shell Programming and Scripting

Help with ksh-to read ip file & append lines to another file based on pattern match

Hi, I need help with this- input.txt : L B white X Y white A B brown M Y black Read this input file and if 3rd column is "white", then add specific lines to another file insert.txt. If 3rd column is brown, add different set of lines to insert.txt, and so on. For example, the given...

6. Shell Programming and Scripting

Match list of strings in File A and compare with File B, C and write to a output file in CSV format

Hi Friends, I'm a great fan of this forum... it has helped me tone my skills in shell scripting. I have a challenge here, which I'm sure you guys would help me in achieving... File A has a list of job ids and I need to compare this with the File B (*.log) and File C (extend *.log) and copy...

7. UNIX for Dummies Questions & Answers

Help with AWK - Compare a field in a file to lookup file and substitute if only a match

I have the below 2 files: 1) Third field from file1.txt should be compared to the first field of lookup.txt. 2) If match found then third field, file1.txt should be substituted with the second field from lookup.txt. 3)Else just print the line from file1.txt. File1.txt:...

8. Shell Programming and Scripting

Script to read a log file and run 2nd script if the dates match

# cat /tmp/checkdate.log SQL*Plus: Release 11.2.0.1.0 Production on Mon Sep 17 22:49:00 2012 Copyright (c) 1982, 2009, Oracle. All rights reserved. Connected to: Oracle Database 11g Enterprise Edition Release 11.1.0.7.0 - 64bit Production FIRST_TIME NEXT_TIME...

9. Shell Programming and Scripting

Read a file and search a value in another file create third file using AWK

Hi, I have two files with the format shown below. I need to read first field(value before comma) from file 1 and search for a record in file 2 that has the same value in the field "KEY=" and write the complete record of file 2 with corresponding field 2 of the first file in to result file. ...

10. Shell Programming and Scripting

Need help with awk - how to read a content of a file from every file from file list

Hi Experts. I need to list the file and the filename comes from the file ListOfFile.txt. Basicly I have a filename "ListOfFile.txt" and it contain Example of ListOfFile.txt /home/Dave/Program/Tran1.P /home/Dave/Program/Tran2.P /home/Dave/Program/Tran3.P /home/Dave/Program/Tran4.P...

LEARN ABOUT DEBIAN

vcf-compare

VCF-COMPARE(1)							   User Commands						    VCF-COMPARE(1)

NAME

       vcf-compare - compare bgzipped and tabix indexed VCF files

SYNOPSIS

       compare-vcf [OPTIONS] file1.vcf file2.vcf ...

DESCRIPTION

       About: Compare bgzipped and tabix indexed VCF files. (E.g. bgzip file.vcf; tabix -p vcf file.vcf.gz)

OPTIONS

       -c, --chromosomes <list|file>
	      Same as -r, left for backward compatibility. Please do not use as it will be dropped in the future.

       -d, --debug
	      Debugging information. Giving the option multiple times increases verbosity

       -H, --cmp-haplotypes
	      Compare haplotypes, not only positions

       -m, --name-mapping <list|file>
	      Use  with -H when comparing files with differing column names. The argument to this options is a comma-separated list or one mapping
	      per line in a file. The names are colon separated and must appear in the same order as the files on the command line.

       -R, --refseq <file>
	      Compare the actual sequence, not just positions. Use with -w to compare indels.

       -r, --regions <list|file>
	      Process the given regions (comma-separated list or one region per line in a file).

       -s, --samples <list>
	      Process only the listed samples. Excluding unwanted samples may increase performance considerably.

       -w, --win <int>
	      In repetitive sequences, the same indel can be called at different positions. Consider records this far apart as matching (be  it  a
	      SNP or an indel).

       -h, -?, --help
	      This help message.

vcf-compare 0.1.5						     July 2011							    VCF-COMPARE(1)

Shell Programming and Scripting