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Top Forums Shell Programming and Scripting Insert blank line if grep not found Post 302482598 by masterpiece on Wednesday 22nd of December 2010 04:19:42 AM
Old 12-22-2010
Insert blank line if grep not found

Hi all,

I've googling around forum regarding my prob, the nearest would same as thread tittled Insert blank line if grep not found, but she/he did not mention the solution, so I would like to request your help

I've this task, to search in file2 based on pattern in file1 and output it to file3. If the pattern is not found I want it to put it as blank line in file3.

file1
Code:
ACGTGCAT
ACGGTACG
CGTGATGC
GTAGCAGT
GGCATGCT
GTGACGTA

file2
Code:
ACGTGCAT      34
GGCATGCT      54
GTGACGTA      24

output (file3)
Code:
ACGTGCAT     34
<blank line>
<blank line>
<blank line>
GGCATGCT     54
GTGACGTA     24

I've been trying using this command

Code:
for f in `cat file1` ; do grep "$f" file >> file3 ; done

but it dont keep blank space. I want to have result as file3 (shown above) so I can paste back to file1 and it show the same sequence position.

thanks in advance

Moderator's Comments:
Mod Comment Please use code tags when posting data and code samples!

Last edited by Franklin52; 12-22-2010 at 06:51 AM..
 

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DIFF3(1)						      General Commands Manual							  DIFF3(1)

NAME
diff3 - 3-way differential file comparison SYNOPSIS
diff3 [ -exEX3 ] file1 file2 file3 DESCRIPTION
Diff3 compares three versions of a file, and publishes disagreeing ranges of text flagged with these codes: ==== all three files differ ====1 file1 is different ====2 file2 is different ====3 file3 is different The type of change suffered in converting 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. Under the -e option, diff3 publishes a script for the editor ed that will incorporate into file1 all changes between file2 and file3, i.e. the changes that normally would be flagged ==== and ====3. Option -x (-3) produces a script to incorporate only changes flagged ==== (====3). The following command will apply the resulting script to `file1'. (cat script; echo '1,$p') | ed - file1 The -E and -X are similar to -e and -x, respectively, but treat overlapping changes (i.e., changes that would be flagged with ==== in the normal listing) differently. The overlapping lines from both files will be inserted by the edit script, bracketed by "<<<<<<" and ">>>>>>" lines. For example, suppose lines 7-8 are changed in both file1 and file2. Applying the edit script generated by the command "diff3 -E file1 file2 file3" to file1 results in the file: lines 1-6 of file1 <<<<<<< file1 lines 7-8 of file1 ======= lines 7-8 of file3 >>>>>>> file3 rest of file1 The -E option is used by RCS merge(1) to insure that overlapping changes in the merged files are preserved and brought to someone's atten- tion. FILES
/tmp/d3????? /usr/libexec/diff3 SEE ALSO
diff(1) BUGS
Text lines that consist of a single `.' will defeat -e. 7th Edition October 21, 1996 DIFF3(1)
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