My question is: Does every message have 2 duplicates in input data?
You gave abc.txt example, where every messages is duplicated with 'READER_1_2_1>' and 'READER_1_3_1>' headers added. If all logs are presented in such way you can:
I could misunderstand you. It can be too obvious answer for your question. I don't know, if "header" (before '>' sign) changes.
Hi,
My ubuntu flavor always create temporary files having filename followed by ~ on editing. For eg: if I am editing a file called "sip.c", automatically a temporary (bkup) file is getting created with the name "sip.c~". How to avoid this file creation? (7 Replies)
Hi all.
I want to check the free space on a given FS and process the output. Right now, I'm using a temp file to avoid using df twice. This is what I'm doing
#!/usr/bin/ksh
...
df -k $FS_NAME > $TMP_FILE 2>&1
if ]; then
RESULT="CRITICAL - $(cat $TMP_FILE)"
else
cat $TMP_FILE | ...... (3 Replies)
Good afternoon.
I am a newbie.
We just had a potentially big problem (negated to having good backups).
Basically, there is an option in SAM, to delete all the data from the system that a user ever created.
Lo and behold, silly me, I choose that option, and all sorts of needed files... (5 Replies)
Guys
following lines help me in getting numbers from PID column ,to be thrown into first column of a CSV file.
COLUMNS=2047 /usr/bin/ps -eo pid,ppid,uid,user,args | grep -v "PID" > /tmp/masterPID.txt
cat /tmp/masterPID.txt|while read line
do
PID=`echo $line|awk '{print $1}'`
echo "$PID"... (4 Replies)
Hi Everyone,
# cat a.txt
94,aqqc,62345907,
5,aeec,77,
# cat 1.pl
#!/usr/bin/perl
use strict;
use warnings;
use Date::Manip;
open(my $FA, "/root/a.txt") or die "$!";
while(<$FA>) {
chomp;
my @tmp=split(/\,/, $_);
if (index($tmp, "qq") ne -1) {
... (4 Replies)
Hi All,
Just need small help in resolving the special new line character in generated output file.
In one of my shell script I am using following lines to get the spool file (i.e. sfile.txt) and
AAA_XXXX_p111_n222.txt
AAA_YYYY_p111_n222.txt
Here assuming
v_pnum="p111"
v_nid="n222"
... (1 Reply)
Hi Unix gurus,
Maybe it is too much to ask for but please take a moment and help me out. A very humble request to you gurus. I'm new to Unix and I have started learning Unix. I have this project which is way to advanced for me.
File format: CSV file
File has four columns with no header... (8 Replies)
Hello,
I have been working on script in which search and replace the multiple pattern.
1. update_params.sh read the multiple pattern from input file ParamMapping.txt(old_entry|New_entry) and passing this values one by one to change_text.sh
2. change_text.sh read... (0 Replies)
I want to create a file, to save a list of fail2ban blocked ip addresses. So I thought I'd create a loop that will check with fail2ban every minute, and write the ip addresses to a file.
while true; do echo $(fail2ban-client status asterisk-iptables | grep 'IP list' | sed 's/.*://g' | sed -e... (4 Replies)
Discussion started by: aristosv
4 Replies
LEARN ABOUT DEBIAN
bio::graphics::wiggle::loader
Bio::Graphics::Wiggle::Loader(3pm) User Contributed Perl Documentation Bio::Graphics::Wiggle::Loader(3pm)SYNOPSIS
my $loader = Bio::Graphics::Wiggle::Loader->new('/base/directory/for/wigfiles','wibfilename');
my $fh = IO::File->new('uploaded_file.txt');
$loader->load($fh);
my $gff3_file = $loader->featurefile('gff3',$method,$source);
my $featurefile = $loader->featurefile('featurefile');
USAGE
This module loads Bio::Graphics::Wiggle files from source files that use Jim Kent's "WIG" format:
http://genome.ucsc.edu/google/goldenPath/help/wiggle.html
Several data sets can be grouped together in a single WIG source file. The load() method accepts the path to a WIG source file, and will
create one or more .wib ("wiggle binary") databases of quantitative data in the directory indicated when you created the loader. Call the
featurefile() method to return a text file in either GFF3 or Bio::Graphics::FeatureFile format, suitable for loading into a gbrowse
database.
METHODS
$loader = Bio::Graphics::Wiggle::Loader->new('/base/directory' [,'my_data'])
Create a new loader. The first argument specifies the base directory in which the loaded .wib files will be created. The second
argument specifies the base name for the created .wib files, or "track" if not specified.
$loader->load($fh)
Load the data from a source WIG file opened on a filehandle.
$data = $loader->featurefile($type [,$method,$source])
Return the data corresponding to a GFF3 or Bio::Graphics::FeatureFile. The returned file will have one feature per WIG track, and a
properly formatted "wigfile" attribute that directs Bio::Graphics to the location of the quantitative data.
$type is one of "gff3" or "featurefile". In the case of "gff3", you may specify an optional method and source for use in describing
each feature. In the case of "featurefile", the returned file will contain GBrowse stanzas that describe a reasonable starting format
to display the data.
$loader->allow_sampling(1)
If allow_sampling() is passed a true value, then very large files (more than 5 MB) will undergo a sampling procedure to find their
minimum and maximum values and standard deviation. Otherwise, file will be read in its entirety to generate those statistics.
EXTENSIONS
Several extensions to the WIG format "track" declaration are recognized.
transform=<transform>
Specify a transform to be performed on all numeric data within this track prior to loading into the binary wig file. Currently, the
following three declarations are recognized:
transform=logtransform y' = 0 for y == 0
y' = log(y) for y > 0
y' = -log(-y) for y < 0
transform=logsquared y' = log(y**2) for y != 0
y' = 0 for y == 0
transform=none y' = y (no transform - the default)
trim=<trim>
Specify a trimming function to be performed on the data prior to scaling. Currently, the following trim functions are recognized:
trim=stdev1 trim to plus/minus 1 standard deviation of the mean
trim=stdev2 trim to plus/minus 2 standard deviations of the mean (default)
trim=stdevN trim to plus/minus N standard deviations of the mean
trim=none no trimming
Example entended track declaration:
track type=wiggle_0 name="example" description="20 degrees, 2 hr"
trim=stdev2 transform=logsquared
SEE ALSO
Bio::Graphics::Wiggle, Bio::Graphics::Glyph::wiggle_xyplot, Bio::Graphics::Glyph::wiggle_density, Bio::Graphics::Panel,
Bio::Graphics::Glyph, Bio::Graphics::Feature, Bio::Graphics::FeatureFile
AUTHOR
Lincoln Stein <lstein@cshl.org>.
Copyright (c) 2007 Cold Spring Harbor Laboratory
This package and its accompanying libraries is free software; you can redistribute it and/or modify it under the terms of the GPL (either
version 1, or at your option, any later version) or the Artistic License 2.0. Refer to LICENSE for the full license text. In addition,
please see DISCLAIMER.txt for disclaimers of warranty.
perl v5.14.2 2012-02-20 Bio::Graphics::Wiggle::Loader(3pm)