As of now the below perl produces the attached output (matrix_del.txt). What I am trying to do is put a numerical value in column 1 and have it iterate based on the # of rows in the file (matrix_del-desired.txt). Thank you .
Code:
#!/bin/perl
use strict;
# Accept the input and output files as parameters
my $input_file = $ARGV[0];
my $output_file = $ARGV[1];
# Set the header columns to be added to the left
# and to the right of the header in the input file
my @left = (
"Index",
"Chromosome Position",
"Gene",
"Inheritance",
"RNA Accession",
"Chr",
"Coverage",
"Score",
"A(#F,#R)",
"C(#F,#R)",
"G(#F,#R)",
"T(#F,#R)",
"Ins(#F,#R)",
"Del(#F,#R)",
"SNP db_xref",
"Mutation Call",
"Mutant Allele Frequency",
"Amino Acid Change"
);
my @right = (
"HP",
"SPLICE",
"Pseudogene",
"Classification",
"HGMD",
"Disease",
"Sanger",
"References"
);
# open the input file, read the header line and sandwich it
# between @left and @right arrays
my $final_header;
open (FH, "<", $input_file) or die "Can't open $input_file: $!";
chomp(my $hdr=<FH>);
$final_header = sprintf("%s\t%s\t%s\n", join("\t", @left), $hdr, join("\t",@right));
# final header is set, print it to the output file
open (OF, ">", $output_file) or die "Can't open $output_file: $!";
print OF "$final_header";
# close (FH) or die "Can't close $output_file: $!";
my @colsleft = map "Null",(0..$#left);
my @colsright = map "Null",(0..$#right);
while(<FH>) { # puts row of input file into $_
chomp;
print OF join("\t",@colsleft,$_,@colsright),"\n"; # row data is set, print it to the output file
}
Greetings.
I'm having a time of it with this file. I'm trying to do a script that will take two command line inputs, string1 and string2 and use sed to change the text over files in the current directory. This is what I have so far. It appears to work a little, it does create the... (3 Replies)
I can not for the life of me figure out how to iterate over this array
{
'name1' => {
'a' => .
'b' =>
},
'name2' => {
'a' => .
'b' =>
}
}
I want a for loop to iterate through the first element (name1 and name2 in my example) but I can't figure it out. Help... (2 Replies)
Hi,
I have a directory call Test, which contains files "a", b", "c", etc. I want to go through all of the files inside Test and remove any empty file. How would I do that with shell csh?
So far I got...
#!/bin/csh
if (($#argv == 0) || ($#argv > 1)) then
echo "no argument or too... (2 Replies)
Hi,
I am writing a comparator script, which comapre two txt files(column by column)
below are the precondition of this comparator
1)columns of file are not seperated
Ex.
file1.txt
8888812341181892
1243548895685687
8945896789897789
1111111111111111
file2.txt
9578956789567897... (2 Replies)
Hi
i need to find x in the following equation such that it satisfies this condition:
y/x-ln(x)-1.24=0
how can i write a script to iterate to give random x to satisfy this equation.
y is different each time too. any help with awk/shell script will be awesome!
thanks (1 Reply)
I'm trying to send the file list as parameter to another job and execute it.
But the loop doesn't work, the inner job is running only once and not twice as expected
for filelist in $(ls -rt *.txt | tail -2)
do
echo $filelist
export filelist
cmd="$Program -config $configfile -autoexec... (11 Replies)
Have two 3 files which has list of servers,users and location and base url which is common on every server
A = server1 server2 server3
B = user1 user2 user3
C = dom1 dom2 dom3
baseurl=/opt/SP/
and what i have to achieve is below via ssh from REMOTE SERVER
for it's first iteration it... (7 Replies)
I would like to iterate over `dirs`in a script, but the script will never show more than one (current) folder
#! /bin/bash
for i in `dirs`
do
echo ${i}
done
echo ++++++++++++++++++
for i in $( dirs -p )
do
echo ${i}
done
echo ------------------
dirscontent=`dirs`
echo... (5 Replies)
I have a job that produces a file of barcodes that gets added to every time the job runs
I want to check the list to see if the barcode is already in the list and report it out if it is. (3 Replies)
Discussion started by: worky
3 Replies
LEARN ABOUT FREEBSD
uniq
UNIQ(1) BSD General Commands Manual UNIQ(1)NAME
uniq -- report or filter out repeated lines in a file
SYNOPSIS
uniq [-c | -d | -u] [-i] [-f num] [-s chars] [input_file [output_file]]
DESCRIPTION
The uniq utility reads the specified input_file comparing adjacent lines, and writes a copy of each unique input line to the output_file. If
input_file is a single dash ('-') or absent, the standard input is read. If output_file is absent, standard output is used for output. The
second and succeeding copies of identical adjacent input lines are not written. Repeated lines in the input will not be detected if they are
not adjacent, so it may be necessary to sort the files first.
The following options are available:
-c Precede each output line with the count of the number of times the line occurred in the input, followed by a single space.
-d Only output lines that are repeated in the input.
-f num Ignore the first num fields in each input line when doing comparisons. A field is a string of non-blank characters separated from
adjacent fields by blanks. Field numbers are one based, i.e., the first field is field one.
-s chars
Ignore the first chars characters in each input line when doing comparisons. If specified in conjunction with the -f option, the
first chars characters after the first num fields will be ignored. Character numbers are one based, i.e., the first character is
character one.
-u Only output lines that are not repeated in the input.
-i Case insensitive comparison of lines.
ENVIRONMENT
The LANG, LC_ALL, LC_COLLATE and LC_CTYPE environment variables affect the execution of uniq as described in environ(7).
EXIT STATUS
The uniq utility exits 0 on success, and >0 if an error occurs.
COMPATIBILITY
The historic +number and -number options have been deprecated but are still supported in this implementation.
SEE ALSO sort(1)STANDARDS
The uniq utility conforms to IEEE Std 1003.1-2001 (``POSIX.1'') as amended by Cor. 1-2002.
HISTORY
A uniq command appeared in Version 3 AT&T UNIX.
BSD December 17, 2009 BSD
04-15-2015
.