I have a file:
dynamicclaspath.cfg
VENDOR_JAR=/clear-as-1-d/apps/sterling/jar/struts/2_5_18/1_0_0/log4j-core-2.10.0.jar
VENDOR_JAR=/clear-as-1-d/apps/sterling/jar/log4j/2_17_1/log4j-core-2.10.0.jar
I want to replace any occurrence of log4j-core* with log4j-core-2.17.1.jar
I tried this but I know I'm missing a regex:
sed -i '/^log4j-core/ s/[-]* /log4j-core-2.17.1.jar/'
With your shown samples please try following sed program. Using -E option with sed to enable ERE(extended regular expressions) with it. In main program using substitute option to perform substitution. Using sed's capability to use regex and store matched values into temp buffer(capturing groups). Matching till last occurrence of / and then matching log4j-core till jar at last of value. While substituting it with 1st capturing group value(till last occurrence of /) followed by new value of log4j as per OP's requirement.
sed -E 's/(^.*\/)log4j-core-.*\.jar$/\1log4j-core-2.17.1.jar/' Input_file
Using sed
$ sed -E 's/(log4j-core-)[0-9.]+/\12.17.1./' input_file
VENDOR_JAR=/clear-as-1-d/apps/sterling/jar/struts/2_5_18/1_0_0/log4j-core-2.17.1.jar
VENDOR_JAR=/clear-as-1-d/apps/sterling/jar/log4j/2_17_1/log4j-core-2.17.1.jar
It depends on possible other contents in your input file how specific the search pattern must be.
sed 's/log4j-core-.*\.jar/log4j-core-2.17.1.jar/' inputfile
or
sed 's/log4j-core-[0-9.]*\.jar/log4j-core-2.17.1.jar/' inputfile
or (if log4j-core*.jar is always the last part of the line)
sed 's/log4j-core.*/log4j-core-2.17.1.jar/' inputfile
sed -i s'#2.10.0.jar$#2.17.1.jar#'g file
That seems to work.
Related
I have a fasta file that looks like below:
>sequence_1_g1
ATTTCGGATAA
>sequence_2_g1
AGGCTCTAGGA
>sequence_2_g2
TGTTCTGAAAT
>sequence_2_g3
CACCTCGGAGT
>sequence_3_new_g1
GCGGATAAAGC
I'd like to only extract the numbers that comes after the last delimiter and attach them to the end of each header, so that the output would look like below:
>sequence_1_g1_1
ATTTCGGATAA
>sequence_2_g1_1
AGGCTCTAGGA
>sequence_2_g2_2
TGTTCTGAAAT
>sequence_2_g3_3
CACCTCGGAGT
>sequence_3_new_g1_1
GCGGATAAAGC
I've never used linux before and so far I've only been able to find this command to separate the text that comes after the last delimiter: sed -E 's/.*_//' filename.fasta . Can anyone give suggestions on what commands I should look for in addition to get my desired output?
You may try this sed that searches > at line start and if there is a match then it matches 1+ digit at end and replaces with number_number substring expression:
sed -E '/^>/s/[0-9]+$/&_&/' file
>sequence_1_g1_1
ATTTCGGATAA
>sequence_2_g1_1
AGGCTCTAGGA
>sequence_2_g2_2
TGTTCTGAAAT
>sequence_2_g3_3
CACCTCGGAGT
>sequence_3_new_g1_1
GCGGATAAAGC
1st solution: With your shown samples please try following awk code. Written and tested in GNU awk, should work in any version of it.
awk '/^>/{$0=$0 "_" substr($0,length($0))} 1' Input_file
2nd solution: Using GNU awk's match function with regex and capturing group's values please try following.
awk 'match($0,/^>.*([0-9]+)$/,arr){$0=$0"_"arr[1]} 1' Input_file
3rd solution: Assuming if your lines always have _g separated in lines which are getting started from > then we can simply try following awk code also.
awk -F'_g' '/^>/{$0=$0"_"$2} 1' Input_file
4th solution: If in case perl one-liner is accepted you could simply use perl's capability of capturing groups(which will be created if a regex is having true match).
perl -pe 's/(^>.*)([0-9]+$)/\1\2_\2/' Input_file
Using sed
$ sed -E 's/.*_.([0-9]+)/&_\1/' input_file
>sequence_1_g1_1
ATTTCGGATAA
>sequence_2_g1_1
AGGCTCTAGGA
>sequence_2_g2_2
TGTTCTGAAAT
>sequence_2_g3_3
CACCTCGGAGT
>sequence_3_new_g1_1
GCGGATAAAGC
I have a following line;
�5=?�#A00165:69:HKJ3YDMXX:1:1101:16812:7341 1:N:0:TCTTAAAG
and would like to remove characters, �5=?� in front of #. So the desired output looks as follows;
#A00165:69:HKJ3YDMXX:1:1101:16812:7341 1:N:0:TCTTAAAG
I used gnu sed (v4.8)with a following argument;
sed "s/.*#/#/"'
but this did not remove �5=?� thought it worked in the GNU sed live editor.
At this point, I really appreciate any help on this.
My system is 3.10.0-1160.71.1.el7.x86_64
Using sed, remove everything up to the first occurance of #
$ sed 's/^[^#]*//' input_file
#A00165:69:HKJ3YDMXX:1:1101:16812:7341 1:N:0:TCTTAAAG
This might work for you (GNU sed):
sed -E 's/(\o357\o277\o275)5=\?\1//g' file
This removes all occurrences of �5=?�.
N.B. To translate the octal strings use sed -n l file to display the file as is. The triplets \357\277\275 can be matched in the LHS of the substitute command by using \o357\o277\o275.
I have a configuration file (gpsd.default) containing data with the following format:
# If you must specify a non-NMEA driver, uncomment and modify the next line
GPSD_SOCKET="/var/run/gpsd.sock"
GPSD_OPTIONS=""
GPS_DEVICES=""
I am making a change on the file with sed:
sed -i 's/^GPS_DEVICES="".*/GPS_DEVICES="dev/ttyUSB1"/' /etc/default/gpsd.default
or
sed -i '4s/^.*/GPS_DEVICES="dev/ttyUSB1"/' /etc/default/gpsd.default
The above sed command returns error:
sed: bad option in substitution expression
Because the new line contains "/" in its expression.
How to update my sed command to make it work?
This is because you are using a regex containing /, which is the same character sed uses as delimiter.
Just change the sed delimiter to another one, for example ~:
sed -i 's~^GPS_DEVICES="".*~GPS_DEVICES="dev/ttyUSB1"~' /etc/default/gpsd.default
By the way, since you are changing files in /etc, you may want to use -i.bak, so that the original file gets backed up. It is a good practice to prevent loss of important information.
You should update your sed command to this.
sed -i 's/^GPS_DEVICES=\"\".*/GPS_DEVICES=\"dev\/ttyUSB1\"/' /etc/default/gpsd.default
I have to update line with value containg many quotation characters
sed -i 's/.*sonar.links.issue.*/property "sonar.links.issue", "http://jra.url"'
I get error there. What should i do to do it correctly?
Your replacement string contains slashes "http://", so you shouldn't use / as the delimiter for this sed command, use # as shellter proposes.
To complete its answer, I would add the "g" flag, at the end of the sed expression, to ensure the subsitution is made on the whole line, and not only on the first match with ".sonar.links.issue.".
sed -i 's#.*sonar.links.issue.*#property "sonar.links.issue", "http://jra.url"#g' file
Try
sed -i 's#.*sonar.links.issue.*#property "sonar.links.issue", "http://jra.url"#' file
IHTH
I have a variable pattern. And I want to match pattern in file and if pattern is matched then line should be deleted.
I tried with:
sed '/$pattern/d' file.txt
But it doesn't work.
Please give me guidence for the same.
Thanks.
Just do that:
sed /$pattern/d file.txt
The quotes were transforming your variable in a string. Then you need to remove that.
And if you need to to write the changes in the file, just add -i
sed -i /$pattern/d file.txt