07-20-2012
@Ygor: Did you notice "|" at the beginning of every line?
10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
I have "n" files in directory A and "n" files in directory B. The files are expected to be the same with same data. Each file has 14 columns and "x" rows. Of the 14 column, 2 columns are to be considered as key identifiers. Based on this unique combination, I need to compare each field value... (2 Replies)
Discussion started by: Sangtha
2 Replies
2. Shell Programming and Scripting
First, thanks for the help in previous posts... couldn't have gotten where I am now without it!
So here is what I have, I use AWK to match $1 and $2 as 1 string in file1 to $1 and $2 as 1 string in file2. Now I'm wondering if I can extend this AWK command to incorporate the following:
If $1... (4 Replies)
Discussion started by: right_coaster
4 Replies
3. Shell Programming and Scripting
It seems like a common task, but I haven't been able to find the solution.
vitallog.txt
1310,John,Hancock
13211,Steven,Mills
122,Jane,Doe
138,Thoms,Doe
1500,Micheal,May
vitalinfo.txt
12122,Jane,Thomas
122,Janes,Does
123,Paul,Kite
**OUTPUT**
vitalfiltered.txt
12122,Jane,Thomas... (2 Replies)
Discussion started by: charles33
2 Replies
4. UNIX for Dummies Questions & Answers
I have two files in UNIX.
1st file is Entity and Second File is References. 1st File has only one column named Entity ID and 2nd file has two columns Entity ID | Person ID.
I want to produce a output file where entity id's are matching in both the files.
Entity File
624197
624252
624264... (4 Replies)
Discussion started by: PRS
4 Replies
5. Shell Programming and Scripting
Hi Guys
I have the following file
Essentially, I am trying to find the right awk/sed syntax in order to produce the following 3 distinct files from the file above:
Basically, I want to print the lines of the file as long as the second field of the current line is equal to the... (9 Replies)
Discussion started by: moutaye
9 Replies
6. Shell Programming and Scripting
Hi Friends,
I am new to Shell Scripting and need your help in the below situation.
- I have two files (File 1 and File 2) and the contents of the files are mentioned below.
- "Application handle" is the common field in both the files.
(NOTE :- PLEASE REFER TO THE ATTACHMENT "Compare files... (2 Replies)
Discussion started by: Santoshbn
2 Replies
7. Shell Programming and Scripting
Hi Freinds,
I have 2 files . one is source.txt and second one is target.txt. I want to keep source.txt as baseline and compare target.txt. please find the data in 2 files and Expected output.
Source.txt
1|HYD|NAG|TRA|34.5|1234
2|CHE|ESW|DES|36.5|134
3|BAN|MEH|TRA|33.5|234... (5 Replies)
Discussion started by: i150371485
5 Replies
8. Shell Programming and Scripting
I am having two csv files i need to compare these files and the output file should have the information of the differences at the field level.
For Example,
File 1:
A,B,C,D,E,F
1,2,3,4,5,6
File 2:
A,C,B,D,E,F
1,2,4,5,5,6
out put file: (12 Replies)
Discussion started by: karingulanagara
12 Replies
9. Shell Programming and Scripting
Hello, I want to run a field from an awk command through a command in bash.
For example my input file is
1,2,3
20,30,40
60,70,80
I want tot run $2 thought the command
date +%d/%m/%y -d"01/01/15 + $2 days -1 day"
and get the output
1,02/01/15,3
20,30/01/15,40
60,11/03/15,80
... (2 Replies)
Discussion started by: garethsays
2 Replies
10. UNIX for Dummies Questions & Answers
Hi,
For example:
I have:
HostA,XYZ
HostB,XYZ
HostC,ABC
I would like the output to be:
HostA,HostB: XYZ
HostC:ABC
How can I achieve this?
So far what I though of is: (1 Reply)
Discussion started by: alvinoo
1 Replies
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)