Parsing a file

Shell Programming and Scripting
1

Hi, I am having trouble parsing a file. Perhaps it may the spaces in between. I cannot get it done with awk.

Heres how the file looks like.

>Corey barg LTG 1 (jorge k)
MMMMNNNNNNJJJJJHHHHHHHHHHHHKKKKIIIIIKKJJJJJJJJJJJJJ
>Corey barg LTG 2 (88)
MNNNNNNNIIIIIHHKKKKKHKJKJJJJJJJKKKKKKKKKKKKKKKKKK

Basically I want the final output to look like this:

>LTG1
MMMMNNNNNNJJJJJHHHHHHHHHHHHKKKKIIIIIKKJJJJJJJJJJJJJ
>LTG2
MNNNNNNNIIIIIHHKKKKKHKJKJJJJJJJKKKKKKKKKKKKKKKKKK

Note that its space seperated the I want to lose the space between the LTG and the number. thats what im having troubles with.

thanks

2

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3

try sed..

sed 's/^>\(.*\)\(LTG [0-9]\)\(.*\)/>\2/g' filename
4

Awk. print , = print delimeter $OFS between arguments = default is space. Print without , will print no delimeter.

awk ' /^>Corey/ { print ">" $3 $4 ; next }
               { print $0 }
    '  inputfile
5

Or one way using Perl:

$ 
$ cat data.txt
>Corey barg LTG 1 (jorge k)
MMMMNNNNNNJJJJJHHHHHHHHHHHHKKKKIIIIIKKJJJJJJJJJJJJJ
>Corey barg LTG 2 (88)
MNNNNNNNIIIIIHHKKKKKHKJKJJJJJJJKKKKKKKKKKKKKKKKKK
$ 
$ perl -lne '(/>.*LTG (.).*/ && print ">LTG$1") || print' data.txt
>LTG1
MMMMNNNNNNJJJJJHHHHHHHHHHHHKKKKIIIIIKKJJJJJJJJJJJJJ
>LTG2
MNNNNNNNIIIIIHHKKKKKHKJKJJJJJJJKKKKKKKKKKKKKKKKKK
$

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