A shell script is a script written for the shell, or command line interpreter, of an operating system.

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Retrival of read names from fastq file for a particular seq

I have a fastq file.The reads are of length 75bp. This is how a fastq file looks like @ERR030899.2391 HWI-BRUNOP16X_0001:4:1:16426:3738#0/1 ...
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2answers
65 views

how to find number of substrings between delimiter? [closed]

I have the string following something(1)^^^something(2)^^^something(3)^^^ ... ^^^something(n) how to find number of something(s) in the string.
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1answer
240 views

Ubuntu start Node.js server and open Chrome in kiosk mode

I'd like for a computer to immediately start a Node.js application on boot. I'd then like Chrome to open in Kiosk mode, but only after the server has been started. Looking on the Ubuntu Stack ...
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1answer
180 views

What can I do about “cannot execute binary file”

I have a little shell script that simply starts up a Java program. It is installed somewhere deep in the hierarchy, so I don't want to add its containing folder too my path. So I put a symbolic link ...
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4answers
141 views

Add a display to let user wait in bash

I am looking for a pretty stupid piece of code for bash that will show a kind of "please wait" rolling display, with the characters : - \ | / The first problem is that I don't know the name of this ...
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36 views

Is there any way to see make file with all variables substituted

I have huge long makefile written by some other guy, where all coomands contain variables. In order to decode what this command is doing i have look around what that variable is and its taking too ...
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1answer
121 views

Eject all disks and dmg's with Automator script in Mac OS X

I have created an Automator Service to eject all disks in Mac OS X. find /dev -name "disk[1-9]" -exec diskutil eject {} \; This works, but I still receive an error message afterwords: "The action ...
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3answers
51 views

changing order of files

I have a series of files named in alphabetical order (xaa.tif to xdg.tif). I need to reverse the order of the filenames so that the last file is processed first in a script. I would like to rename ...
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155 views

How to rename a movie file and also files ins subdirectories (e.g. subtitles) beginning with same prefix

I've several directories with movie files , and also subdirectories with subtitles files with same prefix or starting with same prefix. I want to rename subtitles files with the Directory name it is ...
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5answers
857 views

How to test if a variable is equal to a number in shell

I have this shell script that isn't working. Input: Server_Name=1 if [ $Server_Name=1 ]; then echo Server Name is 1 else echo Server Name is not 1 fi Output: Server Name is 1 But, if i ...
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1answer
73 views

How do I write a conditional assignment in a Linux script?

I need to create a formula in a Linux shell script. If this was DOS, I'd (probably) be fine, but I've made the change and need to learn....! D1 = a 5-digit number between 40500 and 49500 (this is ...
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2answers
252 views

Filling up the hard drive until certain amount of space is left?

I'm doing some testing of a product on Apple and Android devices. I'd like a script that will fill up the devices hard drive until 100KB space is left on the drive it's runs against to. Also in linux ...
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95 views

Chrome OS sudo startunity app

I am running crouton unity on a Samsung chrome-book. How do i automate a shell script to start unity into a chrome OS app that I can place on the chrome shelf next to the other chrome apps? i want ...
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1answer
57 views

Is it possible to automatize a shared host setup using bash shell script?

Preamble: Never created a shell bash script before. So, and first of all, I'm not even sure if this IS the right tool for the job. If it isn't, please, and before all, let me know what, in your ...
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2answers
205 views

Batch file rename script swapping substrings in filename?

I have a group of files named like title_december_word1_word2.png and want to iterate through the directory and swap word1 and word2 within each file. i.e. go from button_december_state_pressed.png ...
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920 views

batch move/cut folders and its content to another folder

I have this batch script that allows me to copy folders and its content from a text file, could someone help me adjust it so it move/cut the folders+content and not just copy? set ...
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1answer
46 views

Linux flow control exit to terminal on failure

I have a query with flow control. I want to exit the script to terminal when the message is: HOSTNAME NOT ADDED IN /tmp/hosts EXITING, which is a failure message. if grep -o 'abcdefgh01.was.db.dcbc' ...
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1answer
333 views

Use “>>” Redirection Operator for Non-Existent File In tcsh/csh

I'm writing tcsh scripts and I would like to append to a log file, but if the log file doesn't exist before appending to it, I get an error (reproduced below). In bash the file gets created if it ...
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1answer
123 views

How do I use shellscripts for rails with 'screen'?

I've recently started Ruby on Rails development, and I'm using Vagrant as a VM to contain my Rails project, because Windows is a terrible OS to use for any sort of Ruby development, due to the ...
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48 views

Batch Script For Replacing Files

I'm looking for a batch script to read files from a directory and replace them with a zero sized file, if it can detect some special words and then do this, it would be wonderful. For example think ...
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1answer
163 views

error when using while loop in bash script

I am getting an error 2: [: missing ] when using the following while loop: #!/bin/sh while ["$INPUT_STRING" != "bye"] do echo "please type something (bye quits) " read INPUT_STRING echo "you ...
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2answers
256 views

Convert Month Number to Month Name

Is there a way to convert month number to name with a script? example: 2013-10-22 will become Oct 22 Thanks. BTW, I don't have the GNU date and my OS is AIX.
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253 views

Bash Script for Rar command

I need a script to rar my files usage will be like this r1 archivename fileordirtocompress with following attributes rar a -m0 -v1024000 -r How whould this bash script look like? #!/bin/bash ...
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1answer
361 views

How can I save some terminal commands as a file and run them?

I am using OpenSuSe 12.3 I want to create a link on my desktop for some specific terminal commands. The background is that I do some backup via rsync and don't want to type the commands every time. ...
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249 views

In a Shell scripts, check version of installed package, make a decision based on output

Looking to write a cross distro / cross version shell script that makes sure a forced version of PHP is installed Example: Ubuntu 12.04 has 5.3, Ubuntu 13.10 has 5.5, Debian 7 has 5.4 I need this ...
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110 views

Automated git push attempt does not work - authentication issue

I'm trying to automate a very periodic git add/commit/push cycle using a shell script and cron under OS X 10.8.5. The script is as basic as one would expect it to be: cd /my/directory git add . git ...
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3answers
261 views

How to identify the local network you are connected to

I need a script to be able to identify if the computer is connected to my home network, to my work network, o to a different network, either by wifi or by cable. My question is if there some network ...
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4answers
1k views

Listing all words in a text file and finding the most frequent word

I have a file which contains lines. How do I write a script that will find and print out every word in the file, one word per line. Then find and print out the most occurring word (case sensitive) ...
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2answers
112 views

How can I auto-connect to a WPA2 Enterprise network?

I would like my computer to automatically connect to a WPA2-Enterprise network as soon as it boots whenever the network is available, without any action needed by me. The computer already offers to ...
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2answers
93 views

Rearrange content of a file

I'd like to rearrange the content of a file on a per line basis (see below), ideally without using Perl or Python (I'm not allowed to... Don't ask.) The input file contains unordered header lines and ...
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1answer
1k views

Move all files from multiple level sub folders to 2nd level subfolder

I'm looking for windows command or batch script to help me, i Spent 3h reading/ trying to find a solution i know its out there but my lack of scripting/programming isn't helping, hoping some can help ...
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38 views

Where to place an executable Perl script?

I'm now planning a solution that has to call a script that's running on a Linux \UNIX host. I'd prefer to place that script in a folder that exists in all kinds of Linux and UNIX. This helps me to ...
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56 views

How can I batch insert a certain .txt file into every subfolder?

I'm trying to figure out how to insert a licence.txt file into every subfolder, any ideas how to do this in windows command line?
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1answer
42 views

Filtering out incomplete log entries

I'm trying to get some garbage collection logs into Splunk. However, when java starts garbage collection, it starts the log entry, then when it's done it puts in the end of the entry. Splunk treats ...
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1answer
394 views

For Windows systems, will “.bat” or “.cmd” extension make any difference for my script?

Assuming that my shell script is entirely based on DOS commands(dir, cd, etc and not VBS or PowerShell commands), using .cmd or .bat extension for it's name will change something? I mean, it will be ...
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1answer
338 views

Can't get computer to reboot via script

I need to reboot an embedded system via a local network webpage (a CGI script). I have the page built, and it calls a script on the station (which is the (apache) host of the webpage). This script is ...
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53 views

Energy volume calculation script

Hi I want to write a shell script for energy and volume calculations for different lattice constants. For convergence of energy,using siesta. can anyone help I tried this work manually but now want to ...
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1answer
97 views

New process being created while checking with 'if' in bash

ps -ef | while read line; do for i in $line; do if [ $i = 'bash' ]; then echo $line; fi; done; done; unset i; The command runs properly displaying the Bash ...
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90 views

Instructions embedded in Bash script?

Is there a way to make a bash script require a set of parameters when it's loaded, and if not, it will automatically spit out an echo to the screen giving instructions? Looking at this example of a ...
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196 views

Crontab command set not working

I'm trying to set up crontab to run a shell script, but for some reason, the script doesn't get executed. I'm on system with OS X 10.8.5. crontab file 0 12 * * 1 /absolute/path/to/myscript.sh 0 15 * ...
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2answers
284 views

Xterm control sequence to get RGB value for ANSI color

The meat In (some) terminals you can use a sequence like this; printf "\e]4;3;rgb:cc/78/33\e\\" to set the third color in the ANSI color palette to the RGB values represented by #CC7833. Can you ...
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403 views

Entering into multiple directories in Unix and deleting a particular file

I have a list of directories that I want to go into and delete particular files. For example, the directory names I have are as below: 091513 090213 082612 071611 020908 011009 ... 062308 Each of ...
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2answers
100 views

Verifying which SMTP server software is used by remote server

I am trying to catalog which smtp servers are used in an heterogenous pool of servers, and so far I was doing : echo "HELO localhost" | telnet localhost 25 2>/dev/null | grep 220 #process the ...
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134 views

USB dongle for Steam Box (Debian, init, gdm, and runlevels)

I would like use my desktop computer as a normal desktop computer at one time, and a "Steam Box" another. By default I want the computer to boot as a normal desktop; but I want it to be able to boot ...
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1answer
468 views

How do I create a one time use startup script on Linux - Centos 6.x

I want to set a script that will only run one time on a Centos 6.x box and then never run again, since it's going to set some system options based on hardware and then it's all set.
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318 views

Avoid launching explorer to UAC-elevate a program from shell

I'm a member of administrators group on Windows 7. I need to run foo.exe from a Cmd or Powershell. The exe file requires elevation to work but the elevation is not specified in its manifest. Usually ...
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2answers
52 views

How to use $date in Unix script

I'm using $date command in a Unix script and it is giving as "Tue Aug 27 05:53:37 EDT 2013". This is coming as an automatic mail. The timestamp value is long and it wraps to new line. How can I ...
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1answer
707 views

Execute a jar with double click in linux

What I'm trying to achieve is to run a java program on any Linux system (Ubuntu, Fedora, etc... covering as much as possible) by simply double clicking a file-like I would on Windows. I have created a ...
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1answer
304 views

Running commands and shell scripts in Ubuntu

I'm trying to run a shell script in Ubuntu to flash my Firefox OS phone. I've downloaded and unzipped the new version. I've launched the shell and navigated to the directory where the .sh file is. ...
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3answers
166 views

Utility to non-destructively fold or re-indent HTML

I have a script that takes input from wget or similar and searches through it for key words using grep. (I promise i am not trying to parse HTML with regular expressions, it is just a convenient way ...