Login or Register to Ask a Question and Join Our Community

Sponsored Content
Full Discussion: Using = with sed to increase sequence count
Top Forums Shell Programming and Scripting Using = with sed to increase sequence count Post 303024227 by RudiC on Wednesday 3rd of October 2018 04:00:24 PM
Old 10-03-2018
Quote:
Originally Posted by Xterra
. . .
For my own education, why this wouldnt work?
Code:
sed 'N; s/^.*\n//;=;/^[0-9]\+/ s/^/>seq /' file

The = prints immediatly to stdout and can't be changed within the same sed invocation. And, it increments by two.



Quote:
Or this:
Code:
 sed '/^>/s/.*//;/^$/=;/^$/d;s/[1-9].*/echo ">seq" \$(( ( & + 1 )\/2 ))/e' text.txt

. . .
Same here - you need to quit sed and run a new process on its output.
 

10 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

IPv4 addresses: count/output and Awk/Sed

Hi forum. I am fairly new to scripting and use a simple script to process e-mails for my work. These e-mails contain a list of IPv4 IPs that I process and seperate into text files, which are then attached to a larger, 'digest' e-mail. I also put some of the output from the text files into the... (4 Replies)
Discussion started by: laebshade
4 Replies

2. UNIX for Dummies Questions & Answers

Record count problem using sed command

Hi, I have a script which removes 2 header records and 1 trailer record in a list of files. The commands doing the actions are sed '1,2d' $file > tempfile1.dat sed '$d' < tempfile1.dat > $output.txt Its working fine for all records except a file having size=1445509814 and number of... (2 Replies)
Discussion started by: ayanbiswas
2 Replies

3. UNIX for Dummies Questions & Answers

count number of fields not using SED or AWK

hi forums i need help with a little problem i am having. i need to count the number of fields that are in a saved variable so i can use that number to make a different function work properly. is there a way of doing this without using SED/AWK? anything would be greatly appreciated (4 Replies)
Discussion started by: strasner
4 Replies

4. Shell Programming and Scripting

Increase sed performance

I'm using sed to do find and replace. But since the file is huge and i have more than 1000 files to be searched, the script is taking a lot of time. Can somebody help me with a better sed command. Below is the details. Input: 1 1 2 3 3 4 5 5 Here I know the file is sorted. ... (4 Replies)
Discussion started by: gpaulose
4 Replies

5. UNIX for Dummies Questions & Answers

Grep char count & pipe to sed command

Hi I am having a 'grep' headache Here is the contents of my file: (PBZ,CP,(((ME,PBZ,BtM),ON),((ME,((PBZ,DG),(CW9,PG11))),CW9,TS2,RT1))) I would like to count out how many times 'PBZ' occurs and then place that number in the line above 3... (8 Replies)
Discussion started by: cavanac2
8 Replies

6. Shell Programming and Scripting

count and number instances of a character in sed or awk

I currently use LaTeX together with a sed script to set cloze test papers for my students. I currently pepend and equals sign to the front of the words I want to leave out in the finished test, =perpendicular, for example. I am able to number the blanks using a variable in LaTeX. I would like to... (8 Replies)
Discussion started by: maouinin
8 Replies

7. Shell Programming and Scripting

How to get count of replacements done by sed?

Hi , How can i get count of replacements done by sed in a file. I know grep -c is a method. But say if sed had made 10 replacement in a file, can i get number 10 some how? (8 Replies)
Discussion started by: abhitanshu
8 Replies

8. Shell Programming and Scripting

find common entries and match the number with long sequence and cut that sequence in output

Hi all, I have a file like this ID 3BP5L_HUMAN Reviewed; 393 AA. AC Q7L8J4; Q96FI5; Q9BQH8; Q9C0E3; DT 05-FEB-2008, integrated into UniProtKB/Swiss-Prot. DT 05-JUL-2004, sequence version 1. DT 05-SEP-2012, entry version 71. FT COILED 59 140 ... (1 Reply)
Discussion started by: manigrover
1 Replies

9. Shell Programming and Scripting

Ignore escape sequence in sed

Friends, In the file i am having more then 100 lines like, File1 had the values like this: #Example East.server_01=EAST.SERVER_01 East.server_01=EAST.SERVER_01 West.server_01=WEST.SERVER_01 File2 had the values like this: #Example EAST.SERVER_01=http://yahoo.com... (3 Replies)
Discussion started by: jothi basu
3 Replies

10. Shell Programming and Scripting

Count and search by sequence in multiple fasta file

Hello, I have 10 fasta files with sequenced reads information with read sizes from 15 - 35 . I have combined the reads and collapsed in to unique reads and filtered for sizes 18 - 26 bp long unique reads. Now i wanted to count each unique read appearance in all the fasta files and make a table... (5 Replies)
Discussion started by: empyrean
5 Replies

LEARN ABOUT LINUX

shtool-subst

SHTOOL-SUBST.TMP(1)					      GNU Portable Shell Tool					       SHTOOL-SUBST.TMP(1)

NAME

       shtool-subst - GNU shtool sed(1) substitution operations

SYNOPSIS

       shtool subst [-v|--verbose] [-t|--trace] [-n|--nop] [-w|--warning] [-q|--quiet] [-s|--stealth] [-i|--interactive] [-b|--backup ext]
       [-e|--exec cmd] [-f|--file cmd-file] [file] [file ...]

DESCRIPTION

       This command applies one or more sed(1) substitution operations to stdin or any number of files.

OPTIONS

       The following command line options are available.

       -v, --verbose
	   Display some processing information.

       -t, --trace
	   Enable the output of the essential shell commands which are executed.

       -n, --nop
	   No operation mode. Actual execution of the essential shell commands which would be executed is suppressed.

       -w, --warning
	   Show warning on substitution operation resulting in no content change on every file. The default is to show a warning on substitution
	   operations resulted in no content change on all files.

       -q, --quiet
	   Suppress warning on substitution operation resulting in no content change.

       -s, --stealth
	   Stealth operation. Preserve timestamp on file.

       -i, --interactive
	   Enter interactive mode where the user has to approve each operation.

       -b, --backup ext
	   Preserve backup of original file using file name extension ext.  Default is to overwrite the original file.

       -e, --exec cmd
	   Specify sed(1) command directly.

       -f, --file cmd-file
	   Read sed(1) command from file.

EXAMPLE

	#   shell script
	shtool subst -i -e 's;(c) ([0-9]*)-2000;(c) 1-2001;' *.[ch]

	#    RPM spec-file
	%install
	    shtool subst -v -n 
		-e 's;^(prefix=).*;1 $RPM_BUILD_ROOT%{_prefix};g' 
		-e 's;^(sysconfdir=).*;1 $RPM_BUILD_ROOT%{_prefix}/etc;g' 
		`find . -name Makefile -print`
	    make install

HISTORY

       The GNU shtool subst command was originally written by Ralf S.  Engelschall <rse@engelschall.com> in 2001 for GNU shtool.  It was prompted
       by the need to have a uniform and convenient patching frontend to sed(1) operations in the OpenPKG package specifications.

SEE ALSO

       shtool(1), sed(1).

18-Jul-2008							   shtool 2.0.8 					       SHTOOL-SUBST.TMP(1)
All times are GMT -4. The time now is 03:21 PM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy