DeepakXavier, please do read those rules. You should have posted a followup to your original thread, not start a new thread.
Vino, Linux does not have a Bourne shell. It has bash which is a superset of of the old Bourne shell. Bash is linked to sh for people who use the old Bourne shell. Your script is using bash-only stuff.
If I have string { I_love_shell_scripts}
anyone knows how to have output {stpircs_llehs_evol_I}
by using shell and perl ?I know in perl, there is reverse() funcation, but
can it be done by not using reverse()? (3 Replies)
Hi Everyone....I am new to Unix and BASH programming...I just want to read a string and reverse it and display.....can anyone help me out???? (8 Replies)
Hello
I am currently working on a shell script which actually needs to pull some file
from a server ,
The filenames will have the extension with date/time stamp , i need to trim that and name it to proper format
Example :
xyz_20091108_22142365.gzip
i need to remove the... (5 Replies)
FOLKS ,
i have a text file that is generated automatically of an another korn shell script, i want to bring in the fifth line of the text file in to my korn shell script and look for a particular word in the line . Can you all share some thoughts on this one.
thanks...
Venu (3 Replies)
I am reading a string like $/folder1/folder2/filename from a file
And I am storing it in a variable say $path.
I want to store the path within single quotes in order to use the path within a command.
if i set like path="'"$path"'"
echo $path
It is printing like ' $/folder1/folder2/filename'... (6 Replies)
Hello all,
Wondering if anyone can help me out.
Trying to cut the names out of the /etc/passwd file so that they can be displayed first then last name. I cut them out and put them into variables but cant get them to display side by side after cutting. Anyone able to help a newbie? (1 Reply)
i used a two-way linked list "node" for the code::
#include<stdio.h>
#include<malloc.h>
void insert();
void reverse();
struct node
{
char c;
struct node *next;
struct node *back;
}*start=NULL;
int main()
{
int n,i; (4 Replies)
Hi,
I am stuck at comparing a value from database with a space involved.
Condition
if (cust_code != "RAMK" && cust_code != "LML")
{
xxxxxxx
xxxxxxx
xxxxxxx
}
the cust_code is from a table and generally has 4 chars...so in the case of LML it comes with default space at the end.
... (1 Reply)
HI,
I have a string "NZ-deploy-mode-1.15-Linux.x86_64.rpm"
I want to get the string before -1 ie "NZ-deploy-mode"
Input is "NZ-deploy-mode-1.15-Linux.x86_64.rpm"
expected output is "NZ-deploy-mode"
How can I do that in shell script?
Thanks in advance. (6 Replies)
Hi,
I wish to grep everything before the last "/bin" in the following string
/opt/app/bin/app1/jdk150_07/bin/IA64N/java
Desired output: "/opt/app/bin/app1/jdk150_07"
Kindly help ... (2 Replies)
Discussion started by: mohtashims
2 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)