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Full Discussion: Matching column and search closest elements
Top Forums Shell Programming and Scripting Matching column and search closest elements Post 302908629 by giuliangiuseppe on Wednesday 9th of July 2014 07:13:11 AM
Old 07-09-2014
Matching column and search closest elements
Hi all
I have a great challenge that I am not able to resolve.
Briefly, I have a file like this:

Code:
ID_1 chr1 100 -
ID_2 chr2 300 +

and another file like this:

Code:
name_1 chr1 150 no -
name_2 chr1 250 yes -
name_3 chr2 350 yes +
name_4 chr2 280 yes +

Well, for each entry in file1 I would like to find the closest (cloumn 3) feature in file2.
So, for instance for entry1 in file1, I would like to check in file2 which is the element that is closest to "chr1 100" (the second column must match).
Moreover i would like to take in consideration only the element in file two in which the 4th column is "yes"(or at least I can have the possibility to decide this parameter) and the 5th column match with the entry in file1(or also in this case I have the possibility to decide this).

The output file for the example above should be (if I have 4th columns muast matches) like this:
Code:
ID_1 chr1 100 - name2 chr1 250 yes - 150 2
ID_2 chr2 300 + name4 chr2 280 yes + -20 1

So I would like to output all entry in file1 with the closest feature in file2 and report (last 2 column) the distance between column 3 and, for example for entry1, that the closest feature "yes" is the second met.

I really hope that my explanation wa good.

If you need furthr information let me know.
 

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LEARN ABOUT HPUX

merge

merge(1)						      General Commands Manual							  merge(1)

NAME

       merge - three-way file merge

SYNOPSIS

       file1 file2 file3

DESCRIPTION

       combines  two  files  that are revisions of a single original file.  The original file is file2, and the revised files are file1 and file3.
       identifies all changes that lead from file2 to file3 and from file2 to file1, then deposits the merged text into file1.	If the	option	is
       used, the result goes to standard output instead of file1.

       An  overlap  occurs  if both file1 and file3 have changes in the same place.  prints how many overlaps occurred, and includes both alterna-
       tives in the result.  The alternatives are delimited as follows:

	      lines in file1
	      lines in file3

       If there are overlaps, edit the result in file1 and delete one of the alternatives.

       This command is particularly useful for revision control, especially if file1 and file3 are the ends of two branches that have file2  as  a
       common ancestor.

EXAMPLES

       A typical use for is as follows:

	      1.   To  merge  an  RCS branch into the trunk, first check out the three different versions from RCS (see co(1)) and rename them for
		   their revision numbers: 5.2, 5.11, and 5.2.3.3.  File 5.2.3.3 is the end of an RCS branch that split off the trunk at file 5.2.

	      2.   For this example, assume file 5.11 is the latest version on the trunk, and is also a revision  of  the  "original"  file,  5.2.
		   Merge the branch into the trunk with the command:

	      3.   File  5.11  now  contains  all  changes  made on the branch and the trunk, and has markings in the file to show all overlapping
		   changes.

	      4.   Edit file 5.11 to correct the overlaps, then use the command to check the file back in (see ci(1)).

WARNINGS

       uses the ed(1) system editor.  Therefore, the file size limits of ed(1) apply to

AUTHOR

       was developed by Walter F. Tichy.

SEE ALSO

       diff3(1), diff(1), rcsmerge(1), co(1).

																	  merge(1)
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