Posts Tagged ‘Shell’

Using perl and sed to substitute strings in multiple files on Linux and BSD

Friday, August 26th, 2011

Using perl and sed to replace strings in files on Linux, FreeBSD, OpenBSD, NetBSD and other UnixOn many occasions when had to administer on Linux, BSD, SunOS or any other *nix, there is a need to substitute strings inside files or group of files containing a certain string with another one.

The task is not too complex and many of the senior sysadmins out there would certainly already has faced this requirement and probably had a good idea on files substitution with perl and sed, however I’m quite sure there are dozen of system administrators out there who did not know, how and still haven’t faced a situation where there i a requirement to substitute from a command shell or via a scripting language.

This article tagets exactly these system administrators who are not 100% sys op Gurus 😉

1. Substitute text strings inside files on Linux and BSD with perl

Perl programming language has originally been created to do a lot of text manipulation as well as most of the Linux / Unix based hosts today have installed working copy of perl , therefore using perl as a mean to substitute one string in a file to another one is maybe the best way to completet the task.
Another good thing about perl is that text processing with it is said to be in most cases a bit faster than sed .
However it is still dependent on the string to be substituted I haven’t done benchmark tests to positively say 100% that always perl is quicker, however my common sense suggests perl will be quicker.

Now enough talk here is a very simple way to substitute a reoccuring, text string inside a file with another chosen one is like so:

debian:~# perl -pi -e 's/foo/bar/g' file1 file2

This will substitute the string foo with bar everywhere it’s matched in file1 and file2

However the above code is a bit “dangerous” as it does not preserve a backup copy of the original files, where string is substituted is not made.
Therefore using the above command should only be used where one is 100% sure about the string changes to be made.

Hence a better idea whether conducting the text substitution is to keep also the original file backup under a let’s say .bak extension. To achieve that I use perl as follows:

freebsd# perl -i.bak -p -e 's/syzdarma/magdanoz/g;' file1 file2

This command creates copies of the original files file1 and file2 under the names file1.bak and file2.bak , the files file1 and file2 text occurance of strings syzdarma will get substituted with magdanoz using the option /g which means – (substitute globally).

2. Substitute string in all files inside directory using perl on Linux and BSD

Every now and then the there is a need to do manipulations with large amounts of files, I can’t right now remember a good scenario where I had to change all occuring matching strings to anther one to all files located inside a directory, anyhow I’ve done this on a number of occasions.

A good way to do a mass file string substitution on Linux and BSD hosts equipped with a bash shell is via the commands:

debian:/root/textfiles:# for i in $(echo *.txt); do perl -i.bak -p -e 's/old_string/new_string/g;' $i; done

Where the text files had the default txt file extension .txt

Above bash loop prints each of the files located in /root/textfiles and substitutes everywhere (globally) the old_string with new_string .

Another alternative to the above example to replace multiple occuring text string in all files in multiple directories is possible using a combination of shell commands grep, perl, sort, uniq and xargs .
Let’s say that one wants to match everywhere inside the root directory and all the descendant directories for files with a custom string and substitute it to another one, this can be done with the cmd:

debian:~# grep -R -files-with-matches 'old_string' / | sort | uniq | xargs perl -pi~ -e 's/old_string/new_string/g'

This command will lookup for string old_string in all files in the / – root directory and in case of occurance will substitute with new_string (This command’s idea was borrowed as an idea from http://linuxadmin.org so thx.).

Using the combination of 5 commands, however is not very wise in terms of efficiency.

Therefore to save some system resources, its better in terms of efficiency to take advantage of the find command in combination with xargs , here is how:

debian:~# find / | xargs grep 'old_string' -sl |uniq | xargs perl -pi~ -e 's/old_string/new_string/g'

Once again the find command example will do exactly the same as the substitute method with grep -R …

As enough is said about the way to substitute text strings inside files using perl, I will further explain how text strings can be substituted using sed

The main reason why using sed could be a better choice in some cases is that Unices are not equipped by default with perl interpreter. In general the amount of servers who contains installed sed compared to the ones with perl language interpreter is surely higher.

3. Substitute text strings inside files on Linux and BSD with sed stream editor

In many occasions, wether a website is hosted, one needs to quickly conduct a change in string inside all files located in a directory, to resolve issues with static urls directly encoded in html.
To achieve this task here is a code using two little bash script loops in conjunctions with sed, echo and mv commands:

debian:/var/www/website# for i in $(ls -1); do cat $i |sed -e "s#index.htm#http://www.webdomain.com/#g">$i.new; done
debian:/var/www/website# for i in $(ls *.new); do mv $i $(echo $i |sed -e "s#.new##g"); done

The above command sed -e “s#index.htm#http://www.webdomain.com/#g”, instructs sed to substitute all appearance of the text string index.htm to the new text string http://www.webdomain.com

First for bash loop, creates all the files with substituted string to file1.new, file2.new, file3.new etc.
The second for loop uses mv to overwrite the original input files file1, file2, file3, etc. with the newly created ones file1.new, file2.new, file3.new

There is a a way shorter way to conclude the same text substitutions task using a simpler one liner with only using sed and bash’s eval capabilities, here is how:

debian:/var/www/website# sed -i 's/old_string/new_string/g' *

Above command will change old_string to new_string inside all files in directory /var/www/website

Whether a change has to be made with less than 1024 files using this method might be more efficient, however whether a text substitute has to be done to let’s say 5000+ the above simplistic version will not work. An error of Argument list too long will prevent the sed -i ‘s/old_string/new_string/g’ to complete its task.

The above for loop 2 liner should be also working without problems with FreeBSD and the rest of BSD derivatives, though I have not tested it yet, hence any feedback from FreeBSD guys is mostly welcome.

Consider that in order to have the for loops commands work on FreeBSD or NetBSD, they have to be run under a bash shell.
That’s all folks thanks the Lord for letting me write this nice article, I hope it gives some insights on how multiple files text replace on Unix works .
Cheers 😉

How to reboot remotely Linux server if reboot, shutdown and init commands are not working (/sbin/reboot: Input/output error) – Reboot Linux in emergency using MagicSysRQ kernel sysctl variable

Saturday, July 23rd, 2011

SysRQ an alternative way to restart unrestartable Linux server

I’ve been in a situation today, where one Linux server’s hard drive SCSI driver or the physical drive is starting to break off where in dmesg kernel log, I can see a lot of errors like:

[178071.998440] sd 0:0:0:0: [sda] Result: hostbyte=DID_BAD_TARGET driverbyte=DRIVER_OK,SUGGEST_OK
[178071.998440] end_request: I/O error, dev sda, sector 89615868

I tried a number of things to remount the hdd which was throwing out errors in read only mode, but almost all commands I typed on the server were either shown as missng or returning an error:
Input/output error

Just ot give you an idea what I mean, here is a paste from the shell:

linux-server:/# vim /etc/fstab
-bash: vim: command not found
linux-server:/# vi /etc/fstab
-bash: vi: command not found
linux-server:/# mcedit /etc/fstab
-bash: /usr/bin/mcedit: Input/output error
linux-server:/# fdisk -l
-bash: /sbin/fdisk: Input/output error

After I’ve tried all kind of things to try to diagnose the server and all seemed failing, I thought next a reboot might help as on server boot the filesystems will get checked with fsck and fsck might be able to fix (at least temporary) the mess.

I went on and tried to restart the system, and guess what? I got:

/sbin/reboot init Input/output error

I hoped that at least /sbin/shutdown or /sbin/init commands might work out and since I couldn’t use the reboot command I tried this two as well just to get once again:

linux-server:/# shutdown -r now
bash: /sbin/shutdown: Input/output error
linux-server:/# init 6
bash: /sbin/init: Input/output error

You see now the situation was not pinky, it seemed there was no way to reboot the system …
Moreover the server is located in remote Data Center and I the tech support there is conducting assigned task with the speed of a turtle.
The server had no remote reboot, web front end or anything and thefore I needed desperately a way to be able to restart the machine.

A bit of research on the issue has led me to other people who experienced the /sbin/reboot init Input/output error error mostly caused by servers with failing hard drives as well as due to HDD control driver bugs in the Linux kernel.

As I was looking for another alternative way to reboot my Linux machine in hope this would help. I came across a blog post Rebooting the Magic Wayhttp://www.linuxjournal.com/content/rebooting-magic-way

As it was suggested in Cory’s blog a nice alternative way to restart a Linux machine without using reboot, shutdown or init cmds is through a reboot with the Magic SysRQ key combination

The only condition for the Magic SysRQ key to work is to have enabled the SysRQ – CONFIG_MAGIC_SYSRQ in Kernel compile time.
As of today luckily SysRQ Magic key is compiled and enabled by default in almost all modern day Linux distributions in this numbers Debian, Fedora and their derivative distributions.

To use the sysrq kernel capabilities as a mean to restart the server, it’s necessery first to activate the sysrq through sysctl, like so:

linux-server:~# sysctl -w kernel.sysrq=1
kernel.sysrq = 1

I found enabling the kernel.sysrq = 1 permanently in the kernel is also quite a good idea, to achieve that I used:

echo 'kernel.sysrq = 1' >> /etc/sysctl.conf

Next it’s wise to use the sync command to sync any opened files on the server as well stopping as much of the server active running services (MySQL, Apache etc.).

linux-server:~# sync

Now to reboot the Linux server, I used the /proc Linux virtual filesystem by issuing:

linux-server:~# echo b > /proc/sysrq-trigger

Using the echo b > /proc/sysrq-trigger simulates a keyboard key press which does invoke the Magic SysRQ kernel capabilities and hence instructs the kernel to immediately reboot the system.
However one should be careful with using the sysrq-trigger because it’s not a complete substitute for /sbin/reboot or /sbin/shutdown -r commands.
One major difference between the standard way to reboot via /sbin/reboot is that reboot kills all the running processes on the Linux machine and attempts to unmount all filesystems, before it proceeds to sending the kernel reboot instruction.

Using echo b > /proc/sysrq-trigger, however neither tries to umount mounted filesystems nor tries to kill all processes and sync the filesystem, so on a heavy loaded (SQL data critical) server, its use might create enormous problems and lead to severe data loss!

SO BEWARE be sure you know what you’re doing before you proceed using /proc/sysrq-trigger as a way to reboot ;).

How to add a range of virtual IPs to a CentOS and Fedora Linux server

Monday, July 18th, 2011

Recently I had the task to add a range of few IP addresses to as a virtual interface IPs.

The normal way to do that is of course using the all well known ifconfig eth0:0, ifconfig eth0:1 or using a tiny shell script which does it and set it up to run through /etc/rc.local .

However the Redhat guys could omit all this mambo jambo and do it The Redhat way TM 😉 by using a standard method documented in CentOS and RHEL documentation.
Here is how:

# go to network-script directory[root@centos ~]# cd /etc/sysconfig/network-scripts
# create ifcfg-eth0-range (if virtual ips are to be assigned on eth0 lan interface[root@centos network-scripts]# touch ifcfg-eth0-range

Now inside ifcfg-eth0-range, open up with a text editor or use the echo command to put inside:

IPADDR_START=192.168.1.120
IPADDR_END=192.168.1.250
NETMASK=255.255.255.25
CLONENUM_START=0

Now save the /etc/sysconfig/network-scripts/ifcfg-eth0-range file and finally restart centos networking via the network script:

[root@centos network-scripts]# service network restart

That’s all now after the network gets reinitialized all the IPs starting with 192.168.1.120 and ending in 192.168.1.250< will get assigned as virtual IPs for eth0 interface
Cheers 😉

How to add cron jobs from command line or bash scripts / Add crontab jobs in a script

Saturday, July 9th, 2011

I’m currently writting a script which is supposed to be adding new crontab jobs and do a bunch of other mambo jambo.

By so far I’ve been aware of only one way to add a cronjob non-interactively like so:

                  linux:~# echo '*/5 * * * * /root/myscript.sh' | crontab -

Though using the | crontab – would work it has one major pitfall, I did completely forgot | crontab – OVERWRITES CURRENT CRONTAB! with the crontab passed by with the echo command.
One must be extremely careful if he decides to use the above example as you might loose your crontab definitions permanently!

Thanksfully it seems there is another way to add crontabs non interactively via a script, as I couldn’t find any good blog which explained something different from the classical example with pipe to crontab –, I dropped by in the good old irc.freenode.net to consult the bash gurus there 😉

So I entered irc and asked the question how can I add a crontab via bash shell script without overwritting my old existing crontab definitions less than a minute later one guy with a nickname geirha was kind enough to explain me how to get around the annoying overwridding.

The solution to the ovewrite was expected, first you use crontab to dump current crontab lines to a file and then you append the new cron job as a new record in the file and finally you ask the crontab program to read and insert the crontab definitions from the newly created files.
So here is the exact code one could run inside a script to include new crontab jobs, next to the already present ones:

linux:~# crontab -l > file; echo '*/5 * * * * /root/myscript.sh >/dev/null 2>&1' >> file; crontab file

The above definition as you could read would make the new record of */5 * * * * /root/myscript.sh >/dev/null be added next to the existing crontab scheduled jobs.

Now I’ll continue with my scripting, in the mean time I hope this will be of use to someone out there 😉

Runing sudo command simultaneously on multiple servers with SSHSUDO

Tuesday, June 21st, 2011

ssh multiple server command execute
I just was recommended by a friend a nifty tool, which is absoutely nifty for system administrators.

The tool is called sshsudo and the project is hosted on http://code.google.com/p/sshsudo/.

Let’s say you’re responsible for 10 servers with the same operating system let’s say; CentOS 4 and you want to install tcpdump and vnstat on all of them without logging one by one to each of the nodes.

This task is really simple with using sshsudo.
A typical use of sshsudo is:


[root@centos root]# sshsudo -u root \
comp1,comp2,comp3,comp4,comp5,comp6,comp7,comp8,comp9,comp10 yum install tcpdump vnstat

Consequently a password prompt will appear on the screen;
Please enter your password:

If all the servers are configured to have the same administrator root password then just typing one the root password will be enough and the command will get issued on all the servers.

The program can also be used to run a custom admin script by automatically populating the script (upload the script), to all the servers and issuing it next on.

One typical use to run a custom bash shell script on ten servers would be:


[root@centos root]# sshsudo -r -u root \
comp1,comp2,comp3,comp4,comp5,comp6,comp7,comp8,comp9,comp10 /pathtoscript/script.sh

I’m glad I found this handy tool 😉

How to fix “delivery 1: deferral: Sorry,_message_has_wrong_owner._(#4.3.5)/” qmail mail delivery failure message

Friday, May 20th, 2011

After a failed attempt to enable some wrapper scripts to enable domain keys support in a qmail powered mail server my qmail server suddenly stopped being able to normally send mail.

The exact error message which was logged in /var/log/qmail/current was:

@400000004dd66fcc16a088ac delivery 1: deferral: Sorry,_message_has_wrong_owner._(#4.3.5)/

This qmail messed happened after I substituted /var/qmail/bin/qmail-queue and /var/qmail/bin/qmail-remote with two respective wrapper shell scripts which were calling for the original qmail-queue and qmail-remote binaries under the names qmail-queue.orig and qmail-queue.orig

Restoring back qmail-queue.orig to /var/qmail/bin/qmail-queue and qmail-remote.orig to /var/qmain/bin/qmail-remote and restarting the mail server broke my qmail install.

After a bunch of nerves trying to isolate what is causing the error I found out that by mistake I forgot to copy the qmail-queue and qmail-remote permissions and ownership.

Thus I had to check another qmail working installation’s permissions for both binaries and fix the permissions to be equivalent to the permissions:

debian:~# ls -al /var/qmail/bin/qmail-remote
-rwx–x–x 1 root qmail 50464 2011-05-20 12:56 /var/qmail/bin/qmail-remote*
debian:~# ls -al /var/qmail/bin/qmail-queue
-rws–x–x 1 qmailq qmail 20392 2011-05-20 12:56 /var/qmail/bin/qmail-queue*

The exact chmod and chmod commands I issued to solve the shitty issues were as follows:

First I fixed the qmail-queue and qmail-remote ownership:

debian:~# chown qmailq:qmail /var/qmail/bin/qmail-queue
debian:~# chown root:qmail /var/qmail/bin/qmail-remote

Second I set the proper file permissions:

# make the qmail-queue binary suid
debian:~# chmod u+s /var/qmail/bin/qmail-queue
debian:~# chmod 611 /var/qmail/bin/qmail-queue
debian:~# chmod 611 /var/qmail/bin/qmail-remote

Third and last I did a restart of the qmail server and tested it sends properly

debian:~# /usr/bin/qmailctl stop
Stopping qmail...
qmail-send
qmail-smtpd
debian:~# /usr/bin/qmailctl start
Starting qmail

Finally to test that the qmail server qmail-queue was queing and sending with qmail-remote I used the system mail command like so:

debian:~# mail -s "test email" testuser@www.pc-freak.net
asdfafdsdf
.
Cc:

Afterwards the mail was properly received on my mail account testuser@www.pc-freak.net immediately.

In my /var/log/qmail/current log file all seemed fine:

@400000004dd6702a2eb2b064 starting delivery 1: msg 85281596 to remote testuser@www.pc-freak.net
@400000004dd6702a2eb2b834 status: local 0/20 remote 1/20
@400000004dd6702b34cc809c delivery 1: success: 83.228.93.76_accepted_message./Remote_host_said:_250_ok_
1305899099_qp_65293/
@400000004dd6702b34cc886c status: local 0/20 remote 0/20
@400000004dd6702b34cc8c54 end msg 85281596

The test mail was properly received on my mail account testuser@www.pc-freak.net immediately.

It took me like half an hour to figure out what exactly is wrong with the permissions in situations like this I really wanted to change all my qmail installs with postfix and forget forever I ever used qmail …