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Top Forums UNIX for Advanced & Expert Users Map snps into a ref gene file Post 302989924 by marwah on Thursday 19th of January 2017 09:06:21 PM
Old 01-19-2017
I'm expecting that a gene might have more than snpID,
and there might be genes that don't have snps it will be NA
and there might be one snpID for pre one gene

Code:
awk 'FNR==1 {next} FILENAME=="pre_snpinfo_tumor.txt" {k++; POS[k]=$2; ID[k]=$2;} \  
                   FILENAME=="refFlat.txt" {i++; \
                                     if(POS[i]>=$5 && POS[i]<=$6) \
                                          print $1, ID[i], $3, POS[i], $5, $6} \
    ' pre_snpinfo_tumor.txt  refFlat.txt

but there is an error can you help please
 

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Graphics::Primitive::Insets(3pm)			User Contributed Perl Documentation			  Graphics::Primitive::Insets(3pm)

NAME
Graphics::Primitive::Insets - Space between things DESCRIPTION
Graphics::Primitive::Insets represents the amount of space that surrounds something. This object can be used to represent either padding or margins (in the CSS sense, one being inside the bounding box, the other being outside) SYNOPSIS
use Graphics::Primitive::Insets; my $insets = Graphics::Primitive::Insets->new({ top => 5, bottom => 5, left => 5, right => 5 }); METHODS
Constructor new Creates a new Graphics::Primitive::Insets. Instance Methods as_array Return these insets as an array in the form of top, right, bottom and left. bottom Set/Get the inset from the bottom. equal_to Determine if these Insets are equal to another. left Set/Get the inset from the left. right Set/Get the inset from the right. top Set/Get the inset from the top. zero Sets all the insets (top, left, bottom, right) to 0. AUTHOR
Cory Watson, "<gphat@cpan.org>" SEE ALSO
perl(1) COPYRIGHT &; LICENSE Copyright 2008-2010 by Cory G Watson. This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.12.3 2010-08-21 Graphics::Primitive::Insets(3pm)
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