Sponsored Content
Top Forums Shell Programming and Scripting Separating list of input files (*.file) with a comma in bash script Post 302526411 by TuAd on Tuesday 31st of May 2011 12:25:27 PM
Old 05-31-2011
Many thanks for your reply!

Can it be that a (`) is missing? When I run the command I get an error message (below). Sorry, I'm new to bashSmilie

Code:
#!/bin/bash

for i in *.fastq; my_variable=`echo $my_variable$i; done

./bowtie index_file $my_variable outfile.sam

Error:
./test2.sh: line 3: unexpected EOF while looking for matching ``'
./test2.sh: line 15: syntax error: unexpected end of file


Many thanks again!
 

10 More Discussions You Might Find Interesting

1. UNIX for Dummies Questions & Answers

Simple script for separating files

Hi all, I was wondering if someone could help me writing a simple script on separating files into separate folders. I have 92 files called various things and I want to separate these folders like so: Create a folder called "1" and put files 1-23 in it Create a folder called "2" and put... (5 Replies)
Discussion started by: hertingm
5 Replies

2. Shell Programming and Scripting

separating comma delimited words

Hi, I have file with text ________________________________ GROUP:firstname1.lastname1,first_name2.last_name2,first_name3.last_name3 HEAD:firstname.lastname ________________________________ I need help to pick the names separately ie.. Need out put as var1 =firstname1.lastname1... (4 Replies)
Discussion started by: rider29
4 Replies

3. Shell Programming and Scripting

Separating delimited file by pattern with exclusion list

I have a file with the contents below jan_t=jan;feb_t=feb;mar_t=mar;year=2010 jan_t=null;feb_t=feb;mar_t=mar;year=2010 jan_t=jan;feb_t=feb;mar_t=mar;year=2010 I want to extract out all the fields values ending with "_t" , however, i want to exclude feb_t and mar_t from the results In... (6 Replies)
Discussion started by: alienated
6 Replies

4. Shell Programming and Scripting

Keeping Null's as it is and separating them by Comma

Hi, I am having source (Oracle) as given below. SourceOBJECT_NAMESUBOBJECT_NAMEOBJECT_IDDATA_OBJECT_IDOBJECT_TYPECREATEDLAST_DDL_TIMESTAMPSTATUSTGSTEST 336559336559TABLE4/15/2009 10:374/15/2009 10:372009-04-15:10:37:57VALIDNNNUNIX 336559336559TABLE4/15/2009 10:374/15/2009... (3 Replies)
Discussion started by: arunvasu2
3 Replies

5. UNIX for Dummies Questions & Answers

Bash script to delete file input on command line

1) I wrote a script and gave the desired permissions using "chmod 755 scriptname". Now if i edit the script file, why do i need to set the permission again? Didn't i set the permission attribute.. or if i edit the file, does the inode number of file changes? 2) I am running my unix on a server... (1 Reply)
Discussion started by: animesharma
1 Replies

6. Shell Programming and Scripting

Input file to bash script

Hi, I have this script Script.sh: #!/bin/sh sed 's,\,,g' input.dat > output .dat But i want to run it witb different files. So i want the input file as an input argument to the script, how could i do that. Running it like this: > Script.sh input.dat (2 Replies)
Discussion started by: Johanni
2 Replies

7. Shell Programming and Scripting

How to generate a csv files by separating the values from the input file based on position?

Hi All, I need help for doing the following. I have a input file like: aaaaaaaaaabbbbbbbbbbbbbbbbbbbb cccbbbbbaaaaaadddddaaaabbbbbbb now I am trying to generate a output csv file where i will have for e.g. 0-3 chars of each line as the first column in the csv, 4-10 chars of the line as... (3 Replies)
Discussion started by: babom
3 Replies

8. Shell Programming and Scripting

Script to delete files with an input for directories and an input for path/file

Hello, I'm trying to figure out how best to approach this script, and I have very little experience, so I could use all the help I can get. :wall: I regularly need to delete files from many directories. A file with the same name may exist any number of times in different subdirectories.... (3 Replies)
Discussion started by: *ShadowCat*
3 Replies

9. UNIX for Advanced & Expert Users

Help with ksh script to list, then cp files from a user input date range

Hi, I'm quite new to ksh scripting, can someone help me with this. Requirements: I need to create a script that list the files from a user input date range. e. g. format of file: *c1*log.2012-12-22-14-00* *c1*log.2012-12-22-14-00* *c1*log.2012-12-22-14-00*... (1 Reply)
Discussion started by: chococrunch6
1 Replies

10. Shell Programming and Scripting

Help in input file's in bash script

hello guys i have bash script to open my routers with username and password i made script but i have problem this script can/t read password from file #!/bin/bash router_file="ips" passwd="password.txt" for router in cat ;$router_file do for pass in cat ;$passwd; do res=$(curl -m 1 ... (7 Replies)
Discussion started by: manhoud
7 Replies
SERVICE(8)						    BSD System Manager's Manual 						SERVICE(8)

NAME
service -- control (start/stop/etc.) or list system services SYNOPSIS
service -e service -R service [-v] -l | -r service [-v] <rc.d script> start|stop|etc. DESCRIPTION
The service command is an easy interface to the rc.d system. Its primary purpose is to start and stop services provided by the rc.d scripts. When used for this purpose it will set the same restricted environment that is in use at boot time (see below). It can also be used to list the scripts using various criteria. The options are as follows: -e List services that are enabled. The list of scripts to check is compiled using rcorder(8) the same way that it is done in rc(8), then that list of scripts is checked for an "rcvar" assignment. If present the script is checked to see if it is enabled. -R Restart all enabled local services. -l List all files in /etc/rc.d and the local startup directories. As described in rc.conf(5) this is usually /usr/local/etc/rc.d. All files will be listed whether they are an actual rc.d script or not. -r Generate the rcorder(8) as in -e above, but list all of the files, not just what is enabled. -v Be slightly more verbose ENVIRONMENT
When used to run rc.d scripts the service command sets HOME to / and PATH to /sbin:/bin:/usr/sbin:/usr/bin which is how they are set in /etc/rc at boot time. EXIT STATUS
The service utility exits 0 on success, and >0 if an error occurs. EXAMPLES
The following are examples of typical usage of the service command: service named status service -rv The following programmable completion entry can be use in bash(1) for the names of the rc.d scripts: _service () { local cur cur=${COMP_WORDS[COMP_CWORD]} COMPREPLY=( $( compgen -W '$( service -l )' -- $cur ) ) return 0 } complete -F _service service SEE ALSO
bash(1) (ports/shells/bash), rc.conf(5), rc(8), rcorder(8) HISTORY
The service utility first appeared in FreeBSD 7.3. AUTHORS
This manual page was written by Douglas Barton <dougb@FreeBSD.org>. BSD
December 11, 2012 BSD
All times are GMT -4. The time now is 04:43 AM.
Unix & Linux Forums Content Copyright 1993-2022. All Rights Reserved.
Privacy Policy