In a nutshell, I need to work out how to return the last matching pattern from an awk //,// search. I can bring back the first, but am unsure how to obtain the last, and a simple tail won't work as the match could be over multiple lines.
Secondly I would like some way of pattern matching, a... (10 Replies)
Dear Team,
How do we match two patterns on the same line using awk?Are there any logical operators which i could use in awk like awk '\gokul && chennai\' <filename>
Eg:
Input file:
gokul,10/11/1986,coimbatore.
gokul,10/11/1986,bangalore.
gokul,12/04/2008,chennai.... (2 Replies)
Hi,
How can I tell awk to print all lines/columns if column number 5 contains the word Monday?
I have tried
nawk -F, '$5==Monday' OFS=, myfile > outputfile
but that doesn't work (I am a newb!!)
Thanks, (7 Replies)
Hello all,
I am trying to sort thru a database and print all the customers whose first names are only four characters. I just want to pull the first name only from the database.
the database records appear like this in file:
Mike Harrington:(510) 548-1278:250:100:175; first is name Mike... (4 Replies)
Hello ,
I have comma delimited file with over 20 fileds that i need to do some validations on. I have to check if certain fields are null and then write the line containing the null field into a new file and then delete the line from the current file.
Can someone tell me how i could go... (2 Replies)
can somebody provide me with some ksh code that will return true if my the contents in my variable match anyone of these strings ORA|ERROR|SP2
variable="Error:ORA-01017: Invalid username/password; logon denied\nSP2-0640:Not connected"
I tried this and it does not seem to work for me
... (3 Replies)
Hi I am trying to find a pattern match with column one containing 3 numbers.
input file tmp.lst
abcd456|1|23123|123123|23423
kumadff|a|dadfadf|adfd|adfadfadf
xxxd999|d|adfdfs|adfadf|adfdasfadf
admin|a|dafdf|adfadfa|||
output file tmp4.lst
abcd456|1|23123|123123|23423... (3 Replies)
I have two files, want to compare file1 data with file2 second column and print line which are not matching. Need help in matching the pattern, file2 second column number can be leading 0 or 00 or 000.
Example:
file1
1
2
3
file2
a,0001
b,02
c,000
d,01
e,2
f,0005
Expected output:... (20 Replies)
Hi,
I have input file whose first column needs(match.txt) to be matched with the first column of the input file with min & max length as defined in match.txt. But conditions are not matching. Please help on the changes in the code below as for multiple enteries in match.txt complete match.txt will... (3 Replies)
Hi
I need to do a patten match between files .
I am new to shell scripting and have come up with this so far. It take 50 seconds to process files of 2mb size . I need to tune this code as file size will be around 50mb and need to save time.
Main issue is that I need to search the pattern from... (2 Replies)
Discussion started by: nitin_daharwal
2 Replies
LEARN ABOUT DEBIAN
bio::graphics::glyph::wiggle_xyplot
Bio::Graphics::Glyph::wiggle_xyplot(3pm) User Contributed Perl Documentation Bio::Graphics::Glyph::wiggle_xyplot(3pm)NAME
Bio::Graphics::Glyph::wiggle_xyplot - An xyplot plot compatible with dense "wig"data
SYNOPSIS
See <Bio::Graphics::Panel> and <Bio::Graphics::Glyph>.
DESCRIPTION
This glyph works like the regular xyplot but takes value data in Bio::Graphics::Wiggle file format:
reference = chr1
ChipCHIP Feature1 1..10000 wigfile=./test.wig
ChipCHIP Feature2 10001..20000 wigfile=./test.wig
ChipCHIP Feature3 25001..35000 wigfile=./test.wig
The "wigfile" attribute gives a relative or absolute pathname to a Bio::Graphics::Wiggle format file. The data consist of a packed binary
representation of the values in the feature, using a constant step such as present in tiling array data. Wigfiles are created using the
Bio::Graphics::Wiggle module or the wiggle2gff3.pl script, currently both part of the gbrowse package.
Alternatively, you can place an array of quantitative data directly in the "wigdata" attribute. This can be an arrayref of quantitative
data starting at feature start and ending at feature end, or the data string returned by
Bio::Graphics::Wiggle->export_to_wif64($start,$end).
OPTIONS
In addition to all the xyplot glyph options, the following options are recognized:
Name Value Description
--------------------
basedir path Path to be used to resolve "wigfile" and "densefile"
tags giving relative paths. Default is to use the
current working directory. Absolute wigfile &
densefile paths will not be changed.
autoscale "local" or "global"
If one or more of min_score and max_score options
are absent, then these values will be calculated
automatically. The "autoscale" option controls how
the calculation is done. The "local" value will
scale values according to the minimum and maximum
values present in the window being graphed. "global"
will use chromosome-wide statistics for the entire
wiggle or dense file to find min and max values.
smoothing method name Smoothing method: one of "mean", "max", "min" or "none"
smoothing_window
integer Number of values across which data should be smoothed.
variance_band boolean If true, draw a grey band across entire plot showing mean
and +/- 1 standard deviation (for wig files only).
bicolor_pivot
name Where to pivot the two colors when drawing bicolor plots.
Options are "mean" and "zero". A numeric value can
also be provided.
pos_color color When drawing bicolor plots, the fill color to use for values
that are above the pivot point.
neg_color color When drawing bicolor plots, the fill color to use for values
that are below the pivot point.
SPECIAL FEATURE TAGS
The glyph expects one or more of the following tags (attributes) in feature it renders:
Name Value Description
--------------------
wigfile path name Path to the Bio::Graphics::Wiggle file or object
for quantitative values.
wigdata string Data exported from a Bio::Graphics::Wiggle in WIF
format using its export_to_wif64() method.
densefile path name Path to a Bio::Graphics::DenseFeature object
(deprecated)
denseoffset integer Integer offset to where the data begins in the
Bio::Graphics::DenseFeature file (deprecated)
densesize integer Integer size of the data in the Bio::Graphics::DenseFeature
file (deprecated)
BUGS
Please report them.
SEE ALSO
Bio::Graphics::Panel, Bio::Graphics::Glyph, Bio::Graphics::Glyph::arrow, Bio::Graphics::Glyph::cds, Bio::Graphics::Glyph::crossbox,
Bio::Graphics::Glyph::diamond, Bio::Graphics::Glyph::dna, Bio::Graphics::Glyph::dot, Bio::Graphics::Glyph::ellipse,
Bio::Graphics::Glyph::extending_arrow, Bio::Graphics::Glyph::generic, Bio::Graphics::Glyph::graded_segments,
Bio::Graphics::Glyph::heterogeneous_segments, Bio::Graphics::Glyph::line, Bio::Graphics::Glyph::pinsertion, Bio::Graphics::Glyph::primers,
Bio::Graphics::Glyph::rndrect, Bio::Graphics::Glyph::segments, Bio::Graphics::Glyph::ruler_arrow, Bio::Graphics::Glyph::toomany,
Bio::Graphics::Glyph::transcript, Bio::Graphics::Glyph::transcript2, Bio::Graphics::Glyph::translation, Bio::Graphics::Glyph::allele_tower,
Bio::DB::GFF, Bio::SeqI, Bio::SeqFeatureI, Bio::Das, GD
AUTHOR
Lincoln Stein <steinl@cshl.edu>.
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::Glyph::wiggle_xyplot(3pm)