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Shell Programming and Scripting
Change directory shell
Post 302922797 by cmccabe on Tuesday 28th of October 2014 10:38:38 AM
10-28-2014
Change directory shell
Code:
#!/bin/bash
echo -n "Enter number of sanger patients : "; read id
perl -ne 'chomp; system ("perl table_annovar.pl $_ humandb/ -buildver hg19 -protocol refGene,popfreq_all,common,clinvar,clinvarsubmit,clinvarreference -operation g,f,f,f,f,f -otherinfo")' < file.txtCode:
cd "C:\Users\cmccabe\Desktop\annovar"
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LEARN ABOUT SUSE
smrsh
SMRSH(8) System Manager's Manual SMRSH(8) NAME
smrsh - restricted shell for sendmail SYNOPSIS
smrsh -c command DESCRIPTION
The smrsh program is intended as a replacement for sh for use in the ``prog'' mailer in sendmail(8) configuration files. It sharply limits the commands that can be run using the ``|program'' syntax of sendmail in order to improve the over all security of your system. Briefly, even if a ``bad guy'' can get sendmail to run a program without going through an alias or forward file, smrsh limits the set of programs that he or she can execute. Briefly, smrsh limits programs to be in a single directory, by default /usr/lib/sendmail.d/bin/ allowing the system administrator to choose the set of acceptable commands, and to the shell builtin commands ``exec'', ``exit'', and ``echo''. It also rejects any commands with the characters ``', `<', `>', `;', `$', `(', `)', ` ' (carriage return), or ` ' (newline) on the command line to prevent ``end run'' attacks. It allows ``||'' and ``&&'' to enable commands like: ``"|exec /usr/local/bin/filter || exit 75"'' Initial pathnames on programs are stripped, so forwarding to ``/usr/bin/vacation'', ``/usr/bin/vacation'', ``/home/server/mydir/bin/vaca- tion'', and ``vacation'' all actually forward to `/usr/lib/sendmail.d/bin/vacation''. System administrators should be conservative about populating the /usr/lib/sendmail.d/bin/ directory. For example, a reasonable additions is vacation(1), and the like. No matter how brow-beaten you may be, never include any shell or shell-like program (such as perl(1)) in the /usr/lib/sendmail.d/bin/ directory. Note that this does not restrict the use of shell or perl scripts in the /usr/lib/sendmail.d/bin/ directory (using the ``#!'' syntax); it simply disallows execution of arbitrary programs. Also, including mail filtering programs such as procmail(1) is a very bad idea. procmail(1) allows users to run arbitrary programs in their procmailrc(5). COMPILATION
Compilation should be trivial on most systems. You may need to use -DSMRSH_PATH="path" to adjust the default search path (defaults to ``/bin:/usr/bin'') and/or -DSMRSH_CMDDIR="dir" to change the default program directory (defaults to ``/usr/lib/sendmail.d/bin/''). FILES
/usr/lib/sendmail.d/bin/ - default directory for restricted programs on SuSE Linux SEE ALSO
sendmail(8) $Date: 2004/08/06 03:55:35 $ SMRSH(8)