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Full Discussion: awk incorrect format
Top Forums Shell Programming and Scripting awk incorrect format Post 303025261 by Geneanalyst on Monday 29th of October 2018 03:52:55 PM
Old 10-29-2018
Quote:
Originally Posted by Corona688
I note that none of the data you posted looks like it came from strictly tab-separated files. I suspect rogue spaces and/or carriage returns in your data.

From your example file1 and file2 I get
Code:
rs12044739    1    52828739    CT
rs72899818      1       TT      TC
rs10157619    1    52836736    GA
rs6684941    1    52844478    AG








Sorry, I forgot to add a step. I have edited my post to reflect this....
 

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COMBINE(1)																COMBINE(1)

NAME
combine - combine sets of lines from two files using boolean operations SYNOPSIS
combine file1 and file2 combine file1 not file2 combine file1 or file2 combine file1 xor file2 _ file1 and file2 _ _ file1 not file2 _ _ file1 or file2 _ _ file1 xor file2 _ DESCRIPTION
combine combines the lines in two files. Depending on the boolean operation specified, the contents will be combined in different ways: and Outputs lines that are in file1 if they are also present in file2. not Outputs lines that are in file1 but not in file2. or Outputs lines that are in file1 or file2. xor Outputs lines that are in either file1 or file2, but not in both files. "-" can be specified for either file to read stdin for that file. The input files need not be sorted, and the lines are output in the order they occur in file1 (followed by the order they occur in file2 for the two "or" operations). Bear in mind that this means that the operations are not commutative; "a and b" will not necessarily be the same as "b and a". To obtain commutative behavior sort and uniq the result. Note that this program can be installed as "_" to allow for the syntactic sugar shown in the latter half of the synopsis (similar to the test/[ command). It is not currently installed as "_" by default, but you can alias it to that if you like. SEE ALSO
join(1) AUTHOR
Copyright 2006 by Joey Hess <joey@kitenet.net> Licensed under the GNU GPL. moreutils 2012-04-09 COMBINE(1)
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