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Top Forums Shell Programming and Scripting Match text in a range and copy value Post 302922998 by cmccabe on Wednesday 29th of October 2014 04:49:58 PM
Old 10-29-2014
Match text in a range and copy value

In the files attached, I am trying to:

if Files.txt $1 is in the range of Exons.txt $1, then in Files.txt $4 the value from Exons.txt $3 is copied else if no match is found Exons.txt $3 = "Intron"

Code:
 For example, the first value in File.txt $1 is chr1:14895-14944 and is not found in any range of Exon.txt, so  File.txt row 1 looks like: chr1:14895-14944 A_16_P30000003 0.319605  intron.


Thanks Smilie.
 

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Perl::Critic::Policy::InputOutput::ProhibitTwoArgOpen(3)User Contributed Perl DocumentatioPerl::Critic::Policy::InputOutput::ProhibitTwoArgOpen(3)

NAME
Perl::Critic::Policy::InputOutput::ProhibitTwoArgOpen - Write "open $fh, q{<}, $filename;" instead of "open $fh, "<$filename";". AFFILIATION
This Policy is part of the core Perl::Critic distribution. DESCRIPTION
The three-argument form of "open" (introduced in Perl 5.6) prevents subtle bugs that occur when the filename starts with funny characters like '>' or '<'. The IO::File module provides a nice object-oriented interface to filehandles, which I think is more elegant anyway. open( $fh, '>output.txt' ); # not ok open( $fh, q{>}, 'output.txt' ); # ok use IO::File; my $fh = IO::File->new( 'output.txt', q{>} ); # even better! It's also more explicitly clear to define the input mode of the file, as in the difference between these two: open( $fh, 'foo.txt' ); # BAD: Reader must think what default mode is open( $fh, '<', 'foo.txt' ); # GOOD: Reader can see open mode This policy will not complain if the file explicitly states that it is compatible with a version of perl prior to 5.6 via an include statement, e.g. by having "require 5.005" in it. CONFIGURATION
This Policy is not configurable except for the standard options. NOTES
There are two cases in which you are forced to use the two-argument form of open. When re-opening STDIN, STDOUT, or STDERR, and when doing a safe pipe open, as described in perlipc. SEE ALSO
IO::Handle IO::File AUTHOR
Jeffrey Ryan Thalhammer <jeff@imaginative-software.com> COPYRIGHT
Copyright (c) 2005-2011 Imaginative Software Systems. All rights reserved. This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.16.3 2014-06-09 Perl::Critic::Policy::InputOutput::ProhibitTwoArgOpen(3)
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