Sponsored Content
Top Forums Shell Programming and Scripting Search strings and highlight them using Perl or bash/awk/sed Post 302842867 by bioinfo on Saturday 10th of August 2013 11:14:08 PM
Old 08-11-2013
Thanks Smilie
I would highly appreciate if you can explain this script.

I am getting following error while running the above script (1.pl):

Quote:
String found where operator expected at 1.pl line 1, near "lpe 'BEGIN{open b, "b.txt";chomp(@b=<b>)}{for $i (@b) {s/$i/\033[31m$i\033[0m/g}}'"
<Do you need to predeclare lpe?>
Bareword found where operator expected at 1.pl line 1, near "'BEGIN{open b, "b.txt";chomp(@b=<b>)}{for $i (@b) {s/$i/\033[31m$i\033[0m/g}}' a"
<Missing operator before a?>
syntax error at 1.pl line 1, near "lpe 'BEGIN{open b, "b.txt";chomp(@b=<b>)}{for $i (@b) {s/$i/\033[31m$i\033[0m/g}}' "
Execution of 1.pl aborted due to compilation errors.

Last edited by bioinfo; 08-11-2013 at 12:33 AM..
 

10 More Discussions You Might Find Interesting

1. Shell Programming and Scripting

awk search for Quoted strings (')

Hi All, I have files: 1. abc.sql 'This is a sample file for testing' This does not have quotations this also does not have quotations. and this 'has quotations'. here I need to list the hard coded strings 'This is a sample file for testing' and 'has quotations'. So i have... (13 Replies)
Discussion started by: kprattip
13 Replies

2. Shell Programming and Scripting

Awk search for a element in the list of strings

Hi, how do I match a particular element in a list and replace it with blank? awk 'sub///' $FILE list="AL, AK, AZ, AR, CA, CO, CT, DE, FL, GA, HI, ID, IL, IN, IA, KS, KY, LA, ME, MD, MA, MI, MN, MS, MO, MT, NE, NV, NH, NJ, NM, NY, NC, ND, OH, OK, OR, PA, RI, SC, SD, TN, TX, UT, VT, VA, WA,... (2 Replies)
Discussion started by: grossgermany
2 Replies

3. UNIX for Advanced & Expert Users

bash/grep/awk/sed: How to extract every appearance of text between two specific strings

I have a text wich looks like this: clid=2 cid=6 client_database_id=35 client_nickname=Peter client_type=0|clid=3 cid=22 client_database_id=57 client_nickname=Paul client_type=0|clid=5 cid=22 client_database_id=7 client_nickname=Mary client_type=0|clid=6 cid=22 client_database_id=6... (3 Replies)
Discussion started by: Pioneer1976
3 Replies

4. Shell Programming and Scripting

Help with sed search&replace between two strings

Hi, i read couple of threads here on forum, and googled about what bugs me, yet i still can't find solution. Problem is below. I need to change this string (with sed if it is possible): This is message text that is being quoted to look like this: This is message text that is being quotedI... (2 Replies)
Discussion started by: angrybb
2 Replies

5. Shell Programming and Scripting

Using Awk to Search Two Strings on One Line

If i wanted to search for two strings that are on lines in the log, how do I do it? The following code searches for just one string that is one one line. awk '/^/ {split($2,s,",");a=$1 FS s} /failure agaf@fafa/ {b=a} END{print b}' urfile What if I wanted to search for "failure agaf@fafa"... (3 Replies)
Discussion started by: SkySmart
3 Replies

6. Shell Programming and Scripting

Using Bash/Sed to delete between identical strings

Hi. I'm hoping that someone can help me with a bash script to delete a block of lines from a file. What I want to do is delete every line between two stings that are the same, including the line the first string is on but not the second. (Marked lines to match with !) For example if I... (2 Replies)
Discussion started by: Zykr
2 Replies

7. Shell Programming and Scripting

Advance search using sed/awk/perl

Hi, I have a file with more than 50,000 lines of records and each record is 50 bytes in length. I need to search every record in this file between positions 11-19 (9 bytes) and 32-40 (9 bytes) and in case any of the above 2 fields is alpha-numeric, i need to replace the whole 9 bytes of that... (7 Replies)
Discussion started by: kikionline
7 Replies

8. Shell Programming and Scripting

Display records between two search strings using sed

I have input file like AAA AAA CCC CCC CCC EEE EEE EEE EEE FFF FFF GGG GGG i was trying to retrieve data between two strings using sed. sed -n /CCC/,/FFF/p input_file Am getting output like CCC CCC CCC (1 Reply)
Discussion started by: NareshN
1 Replies

9. Shell Programming and Scripting

Rsync script to rewrite suffix - BASH, awk, sed, perl?

trying to write up a script to put the suffix back. heres what I have but can't get it to do anything :( would like it to be name.date.suffix rsync -zrlpoDtub --suffix=".`date +%Y%m%d%k%M%S`.~" --bwlimit=1024 /mymounts/test1/ /mymounts/test2/ while IFS=. read -r -u 9 -d '' name... (1 Reply)
Discussion started by: jmituzas
1 Replies

10. Shell Programming and Scripting

How to search and lossless replace strings using sed?

Hello, I would like to replace all occurencies of long data types by others (coresponding int) using 'sed' in the extensive source code of a software package written for 32 bit CPUs. I must use regular expressions to avoid wrong replacements like s/unsigned]+long/ulong/gLeaving out... (2 Replies)
Discussion started by: Mick P. F.
2 Replies
BEGIN(7)							   SQL Commands 							  BEGIN(7)

NAME
BEGIN - start a transaction block SYNOPSIS
BEGIN [ WORK | TRANSACTION ] [ transaction_mode [, ...] ] where transaction_mode is one of: ISOLATION LEVEL { SERIALIZABLE | REPEATABLE READ | READ COMMITTED | READ UNCOMMITTED } READ WRITE | READ ONLY DESCRIPTION
BEGIN initiates a transaction block, that is, all statements after a BEGIN command will be executed in a single transaction until an explicit COMMIT [commit(7)] or ROLLBACK [rollback(7)] is given. By default (without BEGIN), PostgreSQL executes transactions in ``autocom- mit'' mode, that is, each statement is executed in its own transaction and a commit is implicitly performed at the end of the statement (if execution was successful, otherwise a rollback is done). Statements are executed more quickly in a transaction block, because transaction start/commit requires significant CPU and disk activity. Execution of multiple statements inside a transaction is also useful to ensure consistency when making several related changes: other ses- sions will be unable to see the intermediate states wherein not all the related updates have been done. If the isolation level or read/write mode is specified, the new transaction has those characteristics, as if SET TRANSACTION [set_transac- tion(7)] was executed. PARAMETERS
WORK TRANSACTION Optional key words. They have no effect. Refer to SET TRANSACTION [set_transaction(7)] for information on the meaning of the other parameters to this statement. NOTES
START TRANSACTION [start_transaction(7)] has the same functionality as BEGIN. Use COMMIT [commit(7)] or ROLLBACK [rollback(7)] to terminate a transaction block. Issuing BEGIN when already inside a transaction block will provoke a warning message. The state of the transaction is not affected. To nest transactions within a transaction block, use savepoints (see SAVEPOINT [savepoint(7)]). For reasons of backwards compatibility, the commas between successive transaction_modes can be omitted. EXAMPLES
To begin a transaction block: BEGIN; COMPATIBILITY
BEGIN is a PostgreSQL language extension. It is equivalent to the SQL-standard command START TRANSACTION [start_transaction(7)], whose ref- erence page contains additional compatibility information. Incidentally, the BEGIN key word is used for a different purpose in embedded SQL. You are advised to be careful about the transaction semantics when porting database applications. SEE ALSO
COMMIT [commit(7)], ROLLBACK [rollback(7)], START TRANSACTION [start_transaction(7)], SAVEPOINT [savepoint(7)] SQL - Language Statements 2010-05-14 BEGIN(7)
All times are GMT -4. The time now is 06:20 PM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy