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Top Forums Shell Programming and Scripting Using Perl to Merge Multiple Lines in a File Post 302364565 by Peggy White on Friday 23rd of October 2009 11:07:55 AM
Old 10-23-2009
Using Perl to Merge Multiple Lines in a File

I've hunted and hunted but nothing seems to apply to what I need. Any help will be much appreciated!

My input file looks like (Unix):
marker,allele1,allele2
RS1002244,1,1
RS1002244,1,3
RS1002244,3,3
RS1003719,2,2
RS1003719,2,4
RS1003719,4,4

Most markers are listed 3 times but a few have 3 alleles and are listed more.

An example of a marker with 3 alleles is:
marker,allele1,allele2
RS757210,2,2
RS757210,2,3
RS757210,2,4
RS757210,3,3
RS757210,3,4
RS757210,4,4

I would like to get output like:
marker,allele1,allele2,allele3
RS1002244,1,3,.
RS1003719,2,4,,
RS757210,2,3,4

Thanks very much in advance, Peggy 10/23 (happy to have this in formats other than Perl, too)
 

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File::Spec::Functions(3pm)				 Perl Programmers Reference Guide				File::Spec::Functions(3pm)

NAME
File::Spec::Functions - portably perform operations on file names SYNOPSIS
use File::Spec::Functions; $x = catfile('a','b'); DESCRIPTION
This module exports convenience functions for all of the class methods provided by File::Spec. For a reference of available functions, please consult File::Spec::Unix, which contains the entire set, and which is inherited by the modules for other platforms. For further information, please see File::Spec::Mac, File::Spec::OS2, File::Spec::Win32, or File::Spec::VMS. Exports The following functions are exported by default. canonpath catdir catfile curdir rootdir updir no_upwards file_name_is_absolute path The following functions are exported only by request. devnull tmpdir splitpath splitdir catpath abs2rel rel2abs case_tolerant All the functions may be imported using the ":ALL" tag. COPYRIGHT
Copyright (c) 2004 by the Perl 5 Porters. All rights reserved. This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself. SEE ALSO
File::Spec, File::Spec::Unix, File::Spec::Mac, File::Spec::OS2, File::Spec::Win32, File::Spec::VMS, ExtUtils::MakeMaker perl v5.18.2 2014-01-06 File::Spec::Functions(3pm)
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