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Top Forums UNIX for Dummies Questions & Answers Help parsing and replacing text with file name Post 302341464 by zaxxon on Thursday 6th of August 2009 03:50:02 AM
Old 08-06-2009
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A bit lengthy with a 2nd example file:
Code:
$> ll
insgesamt 20
drwxr-xr-x 2 root root  4096 2009-08-06 09:36 .
drwxr-xr-x 3 isau users 4096 2009-08-06 09:32 ..
-rw-r--r-- 1 root root   105 2009-08-06 09:20 file1
-rw-r--r-- 1 root root   103 2009-08-06 09:36 file2
$> cat file1
>xyzsequence
atcatgcacac
ataccgagagg
atataccagag
>abcsequence
atgagatatat
acacacggd
atcgaacac
agttccagat
$> cat file2
>bbbbbbbbb
atcatgcacac
ataccgagagg
atataccagag
>ccccccccccc
atgagatatat
acacacggd
atcgaacac
agttccagat
$> for FILE in file*; do tr -d "\n" < "$FILE"| awk -v file=$FILE '$0{print $0,file}' RS=">" >> outfile; done
$> cat outfile
xyzsequenceatcatgcacacataccgagaggatataccagag file1
abcsequenceatgagatatatacacacggdatcgaacacagttccagat file1
bbbbbbbbbatcatgcacacataccgagaggatataccagag file2
cccccccccccatgagatatatacacacggdatcgaacacagttccagat file2

Maybe someone can optimize it so that the tr will not be needed and inside the awk - I was currently not able to do it heh.
 

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DIFF(1) 						      General Commands Manual							   DIFF(1)

NAME
diff - differential file comparator SYNOPSIS
diff [ -efbwr ] file1 ... file2 DESCRIPTION
Diff tells what lines must be changed in two files to bring them into agreement. If one file is a directory, then a file in that directory with basename the same as that of the other file is used. If both files are directories, similarly named files in the two directories are compared by the method of diff for text files and cmp(1) otherwise. If more than two file names are given, then each argument is compared to the last argument as above. The -r option causes diff to process similarly named subdirectories recursively. The normal output con- tains lines of these forms: n1 a n3,n4 n1,n2 d n3 n1,n2 c n3,n4 These lines resemble ed commands to convert file1 into file2. The numbers after the letters pertain to file2. In fact, by exchanging `a' for `d' and reading backward one may ascertain equally how to convert file2 into file1. As in ed, identical pairs where n1 = n2 or n3 = n4 are abbreviated as a single number. Following each of these lines come all the lines that are affected in the first file flagged by `<', then all the lines that are affected in the second file flagged by `>'. The -b option causes trailing blanks (spaces and tabs) to be ignored and other strings of blanks to compare equal. The -w option causes all white-space to be removed from input lines before applying the difference algorithm. The -e option produces a script of a, c and d commands for the editor ed, which will recreate file2 from file1. The -f option produces a similar script, not useful with ed, in the opposite order. It may, however, be useful as input to a stream-oriented post-processor. Except in rare circumstances, diff finds a smallest sufficient set of file differences. FILES
/tmp/diff[12] SOURCE
/sys/src/cmd/diff SEE ALSO
cmp(1), ed(1) DIAGNOSTICS
Exit status is the empty string for no differences, for some, and for trouble. BUGS
Editing scripts produced under the -e or -f option are naive about creating lines consisting of a single `.'. When running diff on directories, the notion of what is a text file is open to debate. DIFF(1)
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