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Top Forums Shell Programming and Scripting awk to parse field and include the text of 1 pipe in field 4 Post 302959901 by cmccabe on Saturday 7th of November 2015 10:45:24 AM
Old 11-07-2015
That `awk` produces:

Code:
chr1    955543    955763    AGRN-6|pr=2|gc=75    +    
 
chr1    957571    957852    AGRN-7|pr=3|gc=61.2    +  
   
chr1    970621    970740    AGRN-8|pr=1|gc=57.1    +

The |pr=2, |pr=3, and pr=1 is not needed and there looks to be a line skipped each after each row and that will may be problematic for later analysis.

Thank you Smilie.
 

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IO::Async::Protocol::LineStream(3pm)			User Contributed Perl Documentation		      IO::Async::Protocol::LineStream(3pm)

NAME
"IO::Async::Protocol::LineStream" - stream-based protocols using lines of text SYNOPSIS
Most likely this class will be subclassed to implement a particular network protocol. package Net::Async::HelloWorld; use strict; use warnings; use base qw( IO::Async::Protocol::LineStream ); sub on_read_line { my $self = shift; my ( $line ) = @_; if( $line =~ m/^HELLO (.*)/ ) { my $name = $1; $self->invoke_event( on_hello => $name ); } } sub send_hello { my $self = shift; my ( $name ) = @_; $self->write_line( "HELLO $name" ); } This small example elides such details as error handling, which a real protocol implementation would be likely to contain. DESCRIPTION
EVENTS
The following events are invoked, either using subclass methods or CODE references in parameters: on_read_line $line Invoked when a new complete line of input is received. PARAMETERS
The following named parameters may be passed to "new" or "configure": on_read_line => CODE CODE reference for the "on_read_line" event. METHODS
$lineprotocol->write_line( $text ) Writes a line of text to the transport stream. The text will have the end-of-line marker appended to it; $text should not end with it. AUTHOR
Paul Evans <leonerd@leonerd.org.uk> perl v5.14.2 2012-10-24 IO::Async::Protocol::LineStream(3pm)
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