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Full Discussion: Egrep or awk for removing values within CSV file?
Top Forums Shell Programming and Scripting Egrep or awk for removing values within CSV file? Post 302936478 by macurdy on Wednesday 25th of February 2015 09:56:23 PM
Old 02-25-2015
Egrep or awk for removing values within CSV file?
Hello,

I have a large CSV file that contains values all on the same column, and in one very long row (e.g. no line breaks till end, with all data values separated by a comma).

The file has two types of data for the values. One begins with the letters rs and some numbers. The other begins with the letter i and some numbers. An example is below (id's are genome identifiers).

Code:
rs28931576,rs11542040,rs28931577,rs429358,i6007484,i6007510,rs28931578,i6007500,i6007489,i5000217,i6007504,i6007493,rs769455,i6007507,i6007497,i6007512,i6007495,i6007485,i6007492,i5000216,i5000205,rs7412

My Unix command line knowledge was enough to use the cat and cut commands to get the above data to this point.

I can't seem to figure out how to remove all of the values that begin with the letter i. I've tried some awk and egrep commands, but don't have the mastery yet to get this figured out.

I also need a way to get rid of duplicate commas after the i values are removed.

Right now, I'm using Find-Replace with TextEdit on mac to do these steps, however I'd love to be able to script this.

Any help is much appreciated!
Last edited by Don Cragun; 02-26-2015 at 01:29 AM.. Reason: Add CODE tags.
 

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LEARN ABOUT DEBIAN

rdf::trine::exporter::csv

RDF::Trine::Exporter::CSV(3pm)				User Contributed Perl Documentation			    RDF::Trine::Exporter::CSV(3pm)

NAME

       RDF::Trine::Exporter::CSV - Export RDF data to CSV

VERSION

       This document describes RDF::Trine::Exporter::CSV version 1.000

SYNOPSIS

	use RDF::Trine::Exporter::CSV;

DESCRIPTION

       The RDF::Trine::Exporter::CSV class provides an API for serializing RDF data to CSV strings and files.

METHODS

       "new ( sep_char => $sep_char, quote => $bool )"
	   Returns a new RDF::Trine::Exporter::CSV object. If $sep_char is provided, it is used as the separator character in CSV serialization,
	   otherwise a comma (",") is used.

       "serialize_iterator_to_file ( $file, $iterator )"
	   Serializes the bindings objects produced by $iterator, printing the results to the supplied filehandle "<$fh">.

       "serialize_iterator_to_string ( $iterator )"
	   Serializes the bindings objects produced by $iterator, returning the result as a string.

BUGS

       Please report any bugs or feature requests to through the GitHub web interface at <https://github.com/kasei/perlrdf/issues>.

AUTHOR

       Gregory Todd Williams  "<gwilliams@cpan.org>"

COPYRIGHT

       Copyright (c) 2006-2012 Gregory Todd Williams. This program is free software; you can redistribute it and/or modify it under the same terms
       as Perl itself.

perl v5.14.2							    2012-06-29					    RDF::Trine::Exporter::CSV(3pm)
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