09-04-2008
running a looping script for all files in directory
I have three different linux command scripts that I run for 20+ files in one directory.
it goes like this
FIRST SCRIPT:
grep 'something' -w file > newfile1
.
.
.
grep 'something -w file > newfile20
then I take all these 'newfileN' and run this:
awk 'BEGIN { format="%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\n" } { printf(format,$1,$15,$4,$4,$4,$4,$2,$3,$4,$4)}' newfile1 > new.newfile1
.
.
.
awk 'BEGIN { format="%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\t%s\n" } { printf(format,$1,$15,$4,$4,$4,$4,$2,$3,$4,$4)}' newfile20 > new.newfile20
then finally I take these 'new.newfileN' and do this:
sed -e 's/[+-]/U0/2' -e 's/[+-]/0/2' -e 's/[+-]/0/2' -e 's/[+-]/0/2' -e 's/+/F/1' -e 's/-/R/2' -e 's/[+-]/../2' -e 's/chr//1' new.newfile1 > new.new.newfile1
.
.
.
sed -e 's/[+-]/U0/2' -e 's/[+-]/0/2' -e 's/[+-]/0/2' -e 's/[+-]/0/2' -e 's/+/F/1' -e 's/-/R/2' -e 's/[+-]/../2' -e 's/chr//1' new.newfile20 > new.new.newfile20
So, is there a way I can make this all into one script so instead of copying and pasting each scripted line 20+ times.
thanks
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GREP(1) General Commands Manual GREP(1)
NAME
grep - search a file for lines containing a given pattern
SYNOPSIS
grep [-elnsv] pattern [file] ...
OPTIONS
-e -e pattern is the same as pattern
-c Print a count of lines matched
-i Ignore case
-l Print file names, no lines
-n Print line numbers
-s Status only, no printed output
-v Select lines that do not match
EXAMPLES
grep mouse file # Find lines in file containing mouse
grep [0-9] file # Print lines containing a digit
DESCRIPTION
Grep searches one or more files (by default, stdin) and selects out all the lines that match the pattern. All the regular expressions
accepted by ed and mined are allowed. In addition, + can be used instead of * to mean 1 or more occurrences, ? can be used to mean 0 or 1
occurrences, and | can be used between two regular expressions to mean either one of them. Parentheses can be used for grouping. If a
match is found, exit status 0 is returned. If no match is found, exit status 1 is returned. If an error is detected, exit status 2 is
returned.
SEE ALSO
cgrep(1), fgrep(1), sed(1), awk(9).
GREP(1)