I would really appreciate some help with this:
I have a huge file, I will give you an example of how it is formatted:
name:lastname:email
I have a input file with lots of names set out like this example:
edward
michael
jenny
I want to match to name column from the huge file to the name in the input file, and only if it is an exact match (case insensitive)
Once it finds a match I want it to output a .txt with all of the matchs
I think I can use a command something like ^Michael: to give it.
Can anyone help me with this grep problem?
sorry if I am not too clear its very late and I have been on this problem for ages
"Centos 5, "grep -i -E -f file.txt /root/dir2search >out.txt"
file.txt containing
^michael:
^bobert:
^billy:
Doesn't find anything.
grep -i -E -f inputfile namesfile > outputfile will do what you want, if your input file consists of one input name per line, in the pattern you already suggested:
^Michael:
^Jane:
^Tom:
-i: case-insensitive matching
-E: regexp pattern matching (often the default, but I don't know how your environment is set up)
-f: read patterns from a file, one pattern per line
>: redirect the output to a file
To get the existing input file you described (space-separated names) into the new format, you could use:
sed -r 's/([^ ]+)[ $]?/^\1:\n/g;s/\n$//g' inputfile > newinputfile
Related
I am doing a jenkins migration using jenkins-cli where in one step I am using sed command to replacing values manually as like below :
sed 's/mukesh/architect/g' target_file
But I would like to enter all the possible values in Input file with two column with delimeter as = and supply to target file
Input file looks like
ex:
mukesh=architect
abdul=manager
Now I want to use this file as input in sed command for search and replace in my target file. Instead of using s///g manually, I want to use the below option that I found in man page
-f script-file, --file=script-file
But not sure how to use this input file to auto search and replace the pattern in to the target file. It would be grateful if I get any samples, examples.
You can use below code to read input file, parse it and update outfile.
Here I am reading input file, separating values based on delimeter "=" and then updating outfile/target file.
while read name
do
x=`echo $name|cut -d"=" -f1`
y=`echo $name|cut -d"=" -f2`
sed -i "s/$x/$y/g" outfile
done < inputfile
This should solve your problem. Let me know if you are looking for something else or extra.cheers :)
I have a file with partial matches to lines in another file. In order to do this I was looking to generate a while loop with read and substituting a variable for each line of partial matches into a grep command to search a database files with a partial match but for some reason, I am not getting an output (an empty outputfile.txt).
Here is my current script
while read -r line; do
grep $line /path/to/databasefile >> /path/to/folder/outputfile.txt
done < "/partial_matches.txt"
the database has multiple lines with a sequence name then DNA sequence after:
>transcript_ab
AGTCAGTCATGTC
>transcript_ac
AGTCAGTCATGTC
>transctipt_ad
AGTCAGTCATGTC
and the partial matching search file has lines of text:
ab
ac
and I'm looking for a return of:
>transcript_ab
>transcript_ac
any help would be appreciated. Thanks.
If you are using GNU grep, then its -f option is what you are looking for:
grep -f /partial_matches.txt /path/to/databasefile
(if you don't have any pattern in partial_matches.txt but only strings, then use grep -F instead of grep)
you can use a for loop instead:
for i in $(cat partial_matches.txt); do
grep $i /path/to/databasefile >> /path/to/folder/outputfile.txt
done
Also, check if you have a typo:
"/partial_matches.txt" -> "./partial_matches.txt"
I have searched extensively on the internet about this but haven't found much details.
Problem Description:
I am using aix server.
I have a pattern.txt file that contains customer_id for 100 customers in the following sample format:
160471231
765082023
75635713
797649756
8011688321
803056646
I have a directory (/home/aswin/temp) with several files (1.txt, 2.txt, 3.txt and so on) which are pipe(|) delimited. Sample format:
797649756|1001|123270361|797649756|O|2017-09-04 23:59:59|10|123769473
803056646|1001|123345418|1237330|O|1999-02-13 00:00:00|4|1235092
64600123|1001|123885297|1239127|O|2001-08-19 00:00:00|10|1233872
75635713|1001|123644701|75635713|C|2006-11-30 00:00:00|11|12355753
424346821|1001|123471924|12329388|O|1988-05-04 00:00:00|15|123351096
427253285|1001|123179704|12358099|C|2012-05-10 18:00:00|7|12352893
What I need to do search all the strings from pattern.txt file in all files in the directory, in first column of each file and list each filename with number of matches. so if same row has more than 1 match it should be counted as 1.
So the output should be something like (only the matches in first column should count):
1.txt:4
2.txt:3
3.txt:2
4.txt:5
What I have done till now:
cd /home/aswin/temp
grep -srcFf ./pattern.txt * /dev/null >> logfile.txt
This is giving the output in the desired format, but it searching the strings in all columns and not just first column. So the output count is much more than expected.
Please help.
If you want to do that with grep, you must change the pattern.
With your command, you search for pattern in /dev/null and the output is /dev/null:0
I think you want 2>/dev/null but this is not needed because you tell -s to grep.
Your pattern file is in the same directory so grep search in it and output pattern.txt:6
All your files are in the same directory so the -r is not needed.
You put the logfile in the same directory, so the second time you run the command grep search in it and output logfile.txt:0
If you can modify the pattern file, you write each line like ^765082023|
and you rename this file without .txt
So this command give you what you look for.
grep -scf pattern *.txt >>logfile
If you can't modify the pattern file, you can use awk.
awk -F'|' '
NR==FNR{a[$0];next}
FILENAME=="pattern.txt"{next}
$1 in a {b[FILENAME]++}
END{for(i in b){print i,":",b[i]}}
' pattern.txt *.txt >>logfile.txt
I have 70+ strings I need to find and delete in a file. I need to remove the entire line in the file that the string appears in.
I know I can use sed -i '/string to remove/d' fileA.txt to remove them one at a time. However, considering I have 70+, it will take some time doing it this way.
Is there a way I can put these 70+ strings in a file and have sed go through them one by one? Or if I create a file containing the strings, is there a way to compare the two files so it removes any line from fileA that contains one of the strings?
You could use grep:
grep -vf file_with_words.txt file.txt
where file_with_words.txt would be the file containing the list of words, each word being on a different line and file.txt is the file that you want to remove the lines from.
If your list of words contains regex metacharacters, then tell grep to consider those as fixed strings (if that is what you want):
grep -F -vf file_with_words.txt file.txt
Using sed, you'd need to say:
sed '/word1\|word2\|word3/d' file.txt
or
sed -E '/word1|word2|word3/d' file.txt
You could use command substitution to construct the pattern too:
sed -E "/$(paste -sd'|' file_with_words.txt)/d" file.txt
but grep is clearly the tool to use in this case.
If you want to do the job in bash, here's how:
search=fileA.txt
queries=queries.txt
while read query
do
sed -i '' "/$query/d" $search
done < "$queries"
where queries.txt looks like
I
want
to
delete
these
lines
This is not exactly the easiest one to explain in a title.
I have a file inputfile.txt that contains parts of filenames:
file1.abc
filed.def
fileq.lmn
This file is an input file that I need to use to find the full filenames of an actual directory. The ends of the filenames are different from case to case, but part of them is always the same.
I figured that I could grep text from the input file to the ls command in said directory (or the ls command to a simple text file), and then use awk to output my full desired result, but I'm having some trouble doing that.
file1.abc is read from the input file inputfile.txt
It's checked against the directory contents.
If the file exists, specific directories based on the filename are created.
(I'm also in a Busybox environment.. I don't have a lot at my disposal)
Something like this...
cat lscommandoutput.txt \
| awk -F: '{print("mkdir" system("grep $0"); inputfile.txt}' \
| /bin/sh
Thank you.
Edit: My apologies for not being clear on this.
The output should be the full filename of each line found in lscommandoutput.txt using the inputfile.txt to grep those specific lines.
If inputfile.txt contains:
file1.abc
filed.def
fileq.lmn
and lscommandoutput.txt contains:
file0.oba.ca-1.fil
file1.abc.de-1.fil
filed.def.com-2.fil
fileh.jkl.open-1.fil
fileq.lmn.he-2.fil
The extra lines that aren't contained in the inputfile.txt are ignored. The ones that are in the inputfile.txt have a directory created for them with the name that got grepped from lscommandoutput.txt.
/dir/dir2/file1.abc.de-1.fil/ <-- directory in which files can be placed in
/dir/dir2/filed.def.com-2.fil/
/dir/dir2/fileq.lmn.he-2.fil/
Hopefully that is a little bit clearer.
First, you win a useless use of cat award
Secondly, you've explained this really badly. If you can't describe the problem clearly in plain English it's not surprising you are having trouble turning it into a script or set of commands.
grep -f is a good way to get the directory names, but I don't understand what you want to do with them afterwards.
My problem now is using the outputted file with the one file I want to put the folders
Wut? What does "the one file I want to put the folders" mean? Where does the file come from? Is it the file named in inputlist.txt? Does it go in the directory that it matched?
If you just want to create the directories you can do:
fgrep -f ./inputfile.txt ./lscommandoutput.txt | xargs mkdir
N.B. you probably want fgrep so that the input strings aren't treated as regular expressions and regex metacharacters such as . are ignored.