I have the following header :
#SRR1561197.1/1
#SRR1561197.2/1
#SRR1561197.3/1
#SRR1561197.4/1
I want to Add few letters after # and before SRR like this:
#MexD1SRR1561197.1/1
#MexD1SRR1561197.2/1
#MexD1SRR1561197.3/1
#MexD1SRR1561197.4/1
I tried:
sed 's/#/#MexD1/File,fastq > change.fastq
This results in empty file..
Use sed with the in file replacement option. The g at the end makes it global.
sed -i 's/#/#MexD1/g' file
To fix your code.
sed 's/#/#MexD1/g' File.fastq > change.fastq
You have to escape it: sed s/\#/\#MexD1/g source-file-name > change.fastq
Related
To delete/comment 3 lines befor a pattern (including the line with the pattern):
how can i achive it through sed command
Ref:
sed or awk: delete n lines following a pattern
the above ref blog help to achive the this with after a pattern match but i need to know before match
define host{
use xxx;
host_name pattern;
alias yyy;
address zzz;
}
the below sed command will comment the '#' after the pattern match for example
sed -e '/pattern/,+3 s/^/#/' file.cfg
define host{
use xxx;
#host_name pattern;
#alias yyy;
#address zzz;
#}
like this how can i do this for the before pattern?
can any one help me to resolve this
If tac is allowed :
tac|sed -e '/pattern/,+3 s/^/#/'|tac
If tac isn't allowed :
sed -e '1!G;h;$!d'|sed -e '/pattern/,+3 s/^/#/'|sed -e '1!G;h;$!d'
(source : http://sed.sourceforge.net/sed1line.txt)
Reverse the file, comment the 3 lines after, then re-reverse the file.
tac file | sed '/pattern/ {s/^/#/; N; N; s/\n/&#/g;}' | tac
#define host{
#use xxx;
#host_name pattern;
alias yyy;
address zzz;
}
Although I think awk is a little easier to read:
tac file | awk '/pattern/ {c=3} c-- > 0 {$0 = "#" $0} 1' | tac
This might work for you (GNU sed):
sed ':a;N;s/\n/&/3;Ta;/pattern[^\n]*$/s/^/#/mg;P;D' file
Gather up 4 lines in the pattern space and if the last line contains pattern insert # at the beginning of each line in the pattern space.
To delete those 4 lines, use:
sed ':a;N;s/\n/&/3;Ta;/pattern[^\n]*$/d;P;D' file
To delete the 3 lines before pattern but not the line containing pattern use:
sed ':a;N;s/\n/&/3;Ta;/pattern[^\n]*$/s/.*\n//;P;D'
i want to replace lines which contains a string that has some special characters.
i used \ and \ for escape special characters but nothing changes in file.
i use sed like this:
> sed -i '/pnconfig\[\'dbhost\'\] = \'localhost\'/c\This line is removed.' tco.php
i just want to find lines that contains :
$pnconfig['dbhost'] = 'localhost';
and replace that line with:
$pnconfig['dbhost'] = '1.1.1.1';
Wrap the sed in double quotes as
sed -i "s/\(pnconfig\['dbhost'\] = \)'localhost'/\1'1.1.1.1'/" filename
Test
$ echo "\$pnconfig['dbhost'] = 'localhost';" | sed "s/\(pnconfig\['dbhost'\] = \)'localhost'/\1'1.1.1.1'/"
$pnconfig['dbhost'] = '1.1.1.1';
Use as below:
sed -i.bak '/pnconfig\[\'dbhost\'\] = \'localhost\'/pnconfig\[\'dbhost\'\] = \'1.1.1.1\'/' tco.php
Rather than modifying the file for the first time, create back up and then search for your pattern and then replace it with the other as above in your file tco.php
You don't have to worry about backslashing single quotes by using double quotes for sed.
sed -i.bak "/pnconfig\['dbhost'\] = 'localhost'/s/localhost/1.1.1.1/g" File
Try this one.
sed "/$pnconfig\['dbhost']/s/localhost/1.1.1.1/"
I'm using OS X, want to replace
[self.lang getAppLanguageString:#"foo bar"]
to
LocalizedString(#"foo bar", nil)
I use sed like the below:
sed -i '' s/[self\.lang getAppLanguageString:#"([a-zA-Z]+)"]/LocalizedString(#"\1", nil)/g somefile
but not work, how can I do that?
You've already escaped . in the pattern, but also need to escape [ and ].
Try:
sed -i 's/\[self\.lang getAppLanguageString:#\("[^"]*"\)\]/LocalizedString(#\1, nil)/' somefile
My text looks like this:
cat
catch
cat_mouse
catty
I want to replace "cat" with "dog".
When I do
sed "s/cat/dog/"
my result is:
dog
catch
cat_mouse
catty
How do I replace with sed if only part of the word matches?
There's a mistake :
You lack the g modifier
sed 's/cat/dog/g'
g
Apply the replacement to all matches to the regexp, not just the first.
See
http://www.gnu.org/software/sed/manual/html_node/The-_0022s_0022-Command.html
http://sed.sourceforge.net/sedfaq3.html#s3.1.3
If you want to replace only cat by dog only if part of the word matches :
$ perl -pe 's/cat(?=.)/dog/' file.txt
cat
dogch
dog_mouse
dogty
I use Positive Look Around, see http://www.perlmonks.org/?node_id=518444
If you really want sed :
sed '/^cat$/!s/cat/dog/' file.txt
bash-3.00$ cat t
cat
catch
cat_mouse
catty
To replace cat only if it is part of a string
bash-3.00$ sed 's/cat\([^$]\)/dog\1/' t
cat
dogch
dog_mouse
dogty
To replace all occurrences of cat:
bash-3.00$ sed 's/cat/dog/' t
dog
dogch
dog_mouse
dogty
awk solution for this
awk '{gsub("cat","dog",$0); print}' temp.txt
I need help with using sed to comment a matching lines and 4 lines which follows it.
in a text file.
my text file is like this:
[myprocess-a]
property1=1
property2=2
property3=3
property4=4
[anotherprocess-b]
property1=gffgg
property3=gjdl
property2=red
property4=djfjf
[myprocess-b]
property1=1
property4=4
property2=2
property3=3
I want to prefix # to all the lines having text '[myprocess' and 4 lines that follows it
expected output:
#[myprocess-a]
#property1=1
#property2=2
#property3=3
#property4=4
[anotherprocess-b]
property1=gffgg
property3=gjdl
property2=red
property4=djfjf
#[myprocess-b]
#property1=1
#property4=4
#property2=2
#property3=3
Greatly appreciate your help on this.
You can do this by applying a regular expression to a set of lines:
sed -e '/myprocess/,+4 s/^/#/'
This matches lines with 'myprocess' and the 4 lines after them. For those 4 lines it then inserts a '#' at the beginning of the line.
(I think this might be a GNU extension - it's not in any of the "sed one liner" cheatsheets I know)
sed '/\[myprocess/ { N;N;N;N; s/^/#/gm }' input_file
Using string concatenation and default action in awk.
http://www.gnu.org/software/gawk/manual/html_node/Concatenation.html
awk '/myprocess/{f=1} f>5{f=0} f{f++; $0="#" $0} 1' foo.txt
or if the block always ends with empty line
awk '/myprocess/{f=1} !NF{f=0} f{$0="#" $0} 1' foo.txt