#!/bin/bash
fmask="ERR598955_orfm.fna"
for f in $fmask.*
do
[ -f "$f" ] || continue # ensure this is an existing file
ext=${f#$fmask} # strip off the leading fmask
pattern=$(awk '{print $1; exit}' "$f") # pattern is the 1st word in the 1st line
sed -n '1,/^'"${pattern}"'$/ d ; /^>/,$ p' "$f" > "first_out.$ext"
done
You might need to work on it...
This User Gave Thanks to MadeInGermany For This Post:
Hello
when I try to run rm on multiple files I have problem to delete files with space.
I have this command :
find . -name "*.cmd" | xargs \rm -f
it doing the work fine but when it comes across files with spaces like : "my foo file.cmd"
it refuse to delete it
why? (1 Reply)
I'm trying some thing like this. But not working
It worked for bash files
Now I want some thing like that along with multiple input files by redirecting their outputs as inputs of next command like below
Could you guyz p0lz help me on this
#!/usr/bin/awk -f
BEGIN
{
}
script1a.awk... (2 Replies)
Hi,
I need help to split lines from a file into multiple files.
my input look like this:
13
23 45 45 6 7
33 44 55 66 7
13
34 5 6 7 87
45 7 8 8 9
13
44 55 66 77 8
44 66 88 99 6
I want to split every 3 lines from this file to be written to individual files. (3 Replies)
Hi guys,
say I have a few files in a directory (58 text files or somthing)
each one contains mulitple strings that I wish to replace with other strings
so in these 58 files I'm looking for say the following strings:
JAM (replace with BUTTER)
BREAD (replace with CRACKER)
SCOOP (replace... (19 Replies)
Hi,
I'd like to process multiple files. For example:
file1.txt
file2.txt
file3.txt
Each file contains several lines of data. I want to extract a piece of data and output it to a new file.
file1.txt ----> newfile1.txt
file2.txt ----> newfile2.txt
file3.txt ----> newfile3.txt
Here is... (3 Replies)
hi,
I have a directory "test" under which there are 3 files a.txt,b.txt and c.txt.
I need to rename those files to a.pl,b.pl and c.pl respectively.
is it possible to achieve this in a sed or awk one liner?
i have searched but many of them are scripts.
I need to do this in a one liner.
I... (2 Replies)
Hi everyone,
I'm new to the forums, as you can probably tell... I'm also pretty new to scripting and writing any type of code.
I needed to know exactly how I can grep for multiple strings, in files located in one directory, but I need each string to output to a separate file.
So I'd... (19 Replies)
How can I run the following command on multiple files and print out the corresponding multiple files.
perl script.pl genome.gff 1.txt > 1.gff
However, there are multiples files of 1.txt, from 1----100.txt
Thank you so much.
No duplicate posting! Continue here. (0 Replies)
How can I Run one script on multiple files and print out multiple files.
FOR EXAMPLE
i want to run script.pl on 100 files named 1.txt ....100.txt under same directory and print out corresponding file 1.gff ....100.gff.THANKS (4 Replies)
Dear folks
I have two data set which there names are "final.map" and "1.geno" and look like this structures:
final.map:
gi|358485511|ref|NC_006088.3| 2044
gi|358485511|ref|NC_006088.3| 2048
gi|358485511|ref|NC_006088.3| 2187
gi|358485511|ref|NC_006088.3| 17654
... (2 Replies)
Discussion started by: sajmar
2 Replies
LEARN ABOUT DEBIAN
plan9-grep
GREP(1) General Commands Manual GREP(1)NAME
grep, g - search a file for a pattern
SYNOPSIS
grep [ option ... ] pattern [ file ... ]
g [ option ... ] pattern [ file ... ]
DESCRIPTION
Grep searches the input files (standard input default) for lines that match the pattern, a regular expression as defined in regexp(7) with
the addition of a newline character as an alternative (substitute for |) with lowest precedence. Normally, each line matching the pattern
is `selected', and each selected line is copied to the standard output. The options are
-c Print only a count of matching lines.
-h Do not print file name tags (headers) with output lines.
-e The following argument is taken as a pattern. This option makes it easy to specify patterns that might confuse argument parsing,
such as -n.
-i Ignore alphabetic case distinctions. The implementation folds into lower case all letters in the pattern and input before interpre-
tation. Matched lines are printed in their original form.
-l (ell) Print the names of files with selected lines; don't print the lines.
-L Print the names of files with no selected lines; the converse of -l.
-n Mark each printed line with its line number counted in its file.
-s Produce no output, but return status.
-v Reverse: print lines that do not match the pattern.
-f The pattern argument is the name of a file containing regular expressions one per line.
-b Don't buffer the output: write each output line as soon as it is discovered.
Output lines are tagged by file name when there is more than one input file. (To force this tagging, include /dev/null as a file name
argument.)
Care should be taken when using the shell metacharacters $*[^|()= and newline in pattern; it is safest to enclose the entire expression in
single quotes '...'. An expression starting with '*' will treat the rest of the expression as literal characters.
G invokes grep with -n and forces tagging of output lines by file name. If no files are listed, it searches all files matching
*.C *.b *.c *.h *.m *.cc *.java *.cgi *.pl *.py *.tex *.ms
SOURCE
/src/cmd/grep
/bin/g
SEE ALSO ed(1), awk(1), sed(1), sam(1), regexp(7)DIAGNOSTICS
Exit status is null if any lines are selected, or non-null when no lines are selected or an error occurs.
GREP(1)