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Top Forums Shell Programming and Scripting Matching multiple fields from two files and then some? Post 302658699 by Chubler_XL on Tuesday 19th of June 2012 08:25:47 PM
Old 06-19-2012
Seems to be working on your test files OK (see transcript below).

Perhaps your actual data dosn't match the posted testfiles?

Code:
$ cat file1
chrom 1 100     A       G       20      ...(10 columns)
chrom 1 104     G       C       18      ...(10 columns)
chrom 2 28      T       C       44      ...(10 columns)
$ cat file2
chrom 1 200     269     333     396
chrom 2 15      114     207     273     400     496
$ awk -F'\t' 'FNR==NR {
>   Rng[$1]=$2","$3
>   for(i=4;i<NF;i+=2) Rng[$1]=Rng[$1]","$i","$(i+1)
>   next }
> ($1 in Rng){
>   c=split(Rng[$1],v,",");
>   for(i=1;i<c;i+=2) 
>     if($2 >= v[i] && $2 <= v[i+1]) { print; next }
> }' file2 file1
chrom 2 28      T       C       44      ...(10 columns)

This User Gave Thanks to Chubler_XL For This Post:
 

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diff3(1)						      General Commands Manual							  diff3(1)

Name
       diff3 - 3-way differential file comparison

Syntax
       diff3 [-ex3] file1 file2 file3

Description
       The command compares three versions of a file, and publishes the ranges of text that disagree, flagged with the following codes:

	  ====	      all three files differ

	  ====1       file1 is different

	  ====2       file2 is different

	  ====3       file3 is different

       The type of change needed to convert a given range of a given file to some other is indicated in one of these ways:

	  f : n1 a    Text is to be appended after line number n1 in file f, where f = 1, 2, or 3.

	  f : n1 , n2 c
		      Text is to be changed in the range line n1 to line n2.  If n1 = n2, the range may be abbreviated to n1.

       The original contents of the range follows immediately after a c indication.  When the contents of two files are identical, the contents of
       the lower-numbered file is suppressed.

Options
       -3   Produces an editor script containing the changes between file1 and file2 that are to be incorporated into file3.

       -e	   Produces an editor script containing the changes between file2 and file3 that are to be incorporated into file1.

       -x	   Produces an editor script containing the changes among all three files.

Examples
       Under the -e option, publishes a script for the editor that incorporates into file1 all changes between file2 and  file3  -  that  is,  the
       changes	that would normally be flagged ==== and ====3.	Option -x (-3) produces a script to incorporate only changes flagged ==== (====3).
       The following command applies the resulting script to `file1':
       (cat script; echo '1,$p') | ed - file1

Restrictions
       Text lines that consist of a single `.'	defeat -e.

Files
       /tmp/d3?????
       /usr/lib/diff3

See Also
       cmp(1), comm(1), diff(1), dffmk(1), join(1), sccsdiff(1), uniq(1)

																	  diff3(1)
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