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Top Forums Shell Programming and Scripting Perl to extract values and print at end of each line Post 303035235 by k_manimuthu on Friday 17th of May 2019 02:59:55 AM
Old 05-17-2019
Your code regex part doesn't have reference for GT:PL value and need to modify the regex part.
Try the below code and you can add more regex based on your needs.

Code:
 perl -plane ' BEGIN{ %h = qw(0/0 hom 0/1 het 1/1 hom 1/2 het 2/2 hom) } /^[^#].*AF1=(\d+\.?\d*);.*GT:PL\s*([^:]+):/ and $_ .= join "\t", ("",  sprintf("%1.2f",$1), $h{$2}, int($F[5]/33+0.5))' file

 

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TRACE-CMD-EXTRACT(1)													      TRACE-CMD-EXTRACT(1)

NAME
trace-cmd-extract - extract out the data from the Ftrace Linux tracer. SYNOPSIS
trace-cmd extract [OPTIONS] DESCRIPTION
The trace-cmd(1) extract is usually used after trace-cmd-start(1) and trace-cmd-stop(1). It can be used after the Ftrace tracer has been started manually through the Ftrace pseudo file system. The extract command creates a trace.dat file that can be used by trace-cmd-report(1) to read from. It reads the kernel internal ring buffer to produce the trace.dat file. OPTIONS
-p plugin Although extract does not start any traces, some of the plugins require just reading the output in ASCII format. These are the latency tracers, since the latency tracers have a separate internal buffer. The plugin option is therefore only necessary for the wakeup, wakeup-rt, irqsoff, preemptoff and preemptirqsoff plugins. With out this option, the extract command will extract from the internal Ftrace buffers. -O option If a latency tracer is being extracted, and the -p option is used, then there are some Ftrace options that can change the format. This will update those options before extracting. To see the list of options see trace-cmd-list. To enable an option, write its name, to disable the option append the characters no to it. For example: noprint-parent will disable the print-parent option that prints the parent function in printing a function event. -o outputfile By default, the extract command will create a trace.dat file. This option will change where the file is written to. SEE ALSO
trace-cmd(1), trace-cmd-record(1), trace-cmd-report(1), trace-cmd-start(1), trace-cmd-stop(1), trace-cmd-reset(1), trace-cmd-split(1), trace-cmd-list(1), trace-cmd-listen(1) AUTHOR
Written by Steven Rostedt, <rostedt@goodmis.org[1]> RESOURCES
git://git.kernel.org/pub/scm/linux/kernel/git/rostedt/trace-cmd.git COPYING
Copyright (C) 2010 Red Hat, Inc. Free use of this software is granted under the terms of the GNU Public License (GPL). NOTES
1. rostedt@goodmis.org mailto:rostedt@goodmis.org 06/11/2014 TRACE-CMD-EXTRACT(1)
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