Posts Tagged ‘documentroot’

Remove \r (Carriage Return) from string with standard bash shell / sed / tr / vim or awk – Replace \r hidden messy characters from files

Tuesday, February 10th, 2015


I've been recently writting this Apache webserver / Tomcat / JBoss / Java decomissioning bash script. Part of the script includes extraction from httpd.conf of DocumentRoot variable configured for Apache host.
I was using following one liner to grep and store DocumentRoot set directory into new variable:

documentroot=$(grep -i documentroot /usr/local/apache/conf/httpd.conf | awk '{ print $2 }' |sed -e 's#"##g');

Above line greps for documentroot prints 2nd column of the matchi (which is the Apache server set docroot and then removes any " chars).

However I faced the issue that parsed string contained in $documentroot variable there was mysteriously containing r – return carriage – this is usually Carriage Return (CR) sent by Mac OS and Apple computers. For those who don't know the End of Line of files in UNIX / Linux OS-es is LF – often abreviated as n – often translated as return new line), while Windows PCs use for EOF CR + LF – known as the infamous  rn. I was running the script from the server which is running SuSE SLES 11 Linux, meaning the CR + LF end of file is standardly used, however it seem someone has editted the httpd.conf earlier with a text editor from Mac OS X (Terminal). Thus I needed a way to remove the r from CR character out of the variable, because otherwise I couldn't use it to properly exec tar to archive the documentroot set directory, cause the documentroot directory was showing unexistent.

Opening the httpd.conf in standard editor didn't show the r at the end of
"directory", e.g. I could see in the file when opened with vim

DocumentRoot "/usr/local/apache/htdocs/site/www"

However obviously the r character was there to visualize it I had to use cat command -v option (–show-nonprinting):

cat -v /usr/local/apache/conf/httpd.conf

DocumentRoot "/usr/local/apache/htdocs/site/wwwr"

1. Remove the r CR with bash

To solve that with bash, I had to use another quick bash parsing that scans through $directory and removes r, here is how:


It is also possible to use same example to remove "broken" Windows rn Carriage Returns after file is migrated from Windows to Liunx /  FreeBSD host:



2. Remove r Carriage Return character with sed

Other way to do remove (del) Windows / Mac OS Carriage Returns in case if Migrating to UNIX is with sed (stream editor).

sed -i s/r// filename >> filename_out.txt

3. Remove r CR character with tr

There is a third way also to do it with (tr) – translate or delete characters old shool *nix command:

tr -d 'r' < file_with_carriagereturns > file_without_carriage_returns


4. Remove r CRs with awk (pattern scanning and processing language)

 awk 'sub("$", "r")' inputf_with_crs.txt > outputf_without_crs.txt

5. Delete r CR with VIM editor


6. Converting  file DOS / UNIX OSes with dos2unix and unix2dos command line tools

For sysadmins who don't want to bother with writting code to convert CR when moving files between Windows and UNIX hosts there are dos2unix and unix2dos installable commands.

All done Cheers ! 🙂

Client Denied By Server Configuration Linux Apache error solution

Thursday, August 1st, 2013

Client denied by server configuration fix solution Apache feather logo

If you run Apache server on Debian Linux / Ubuntu / CentOS whatever Linux OS and you try to install a new PHP application under lets say /var/www/ getting an error in Apache error.log like:

[Wed Jul 31 03:36:21 2013] [error] [client] client denied by server configuration: /var/www/vea/index.php, referer:

This is due to misconfigured AllowOverrides in some of your main configuration files.

So what is causing the error?

Reason is by default in most current Linux distributions Apache is configured to have restrictive policy following the good security practice (Restrictive by default).
Apache is configured by default to not accept AllowOverrides – i.e. AllowOverride None for DocumentRoot /, because there are plenty of administrators who run Apache without having profound understanding leaving it to interpret by default mod_rewrite rules from .htaccess files etc.

To fix this issue, hence you have to add extra configuration for AllowOverride directive for directory giving the err. In this case /vea:

<Directory /var/www/vea/> 
Options -Indexes FollowSymLinks
AllowOverride AuthConfig
FileInfo Order allow,deny
Allow from all

Above rules are a bit restrictive and will allow only to have .htaccess with only for protecting directory with htaccess passsword for exmpl. – (AuthUserFile, AuthGroupFile, AuthName, AuthType) .htaccess.
-Indexes – instructs /var/www/vea directory listing to be disabled, below two lines:

Order allow, deny
Allow from all

Makes the directory Allowed to be visible by all, however note that it is possible in some of other Apache configuration files to have other rules configured for /vea documentroot /var/www/ which are preventive (Default Deny) – if this is the case just walk through all Apache configs and change where necessary to Allow from all.

In some cases it is possible Web application or Website placed requires AllowOverride All directive instead. If above <Directory>

does not help and you continue to get:

[Wed Jul 31 03:36:21 2013] [error] [client] client denied by server configuration: /var/www/php-application/index.php, referer:  

Try setting Directory rules with AllowOverride All ;

<Directory /var/www/php-application/> 
Options -Indexes FollowSymLinks
AllowOverride All
FileInfo Order allow,deny
Allow from all

Debian / Ubuntu server admins should check closely for AllowOverride rules in files /etc/apache2/conf.d/*

as well as in /etc/apache2/mods-available/*:

Usually there are AllowOverride rules set from files:


and also in


On Debian GNU / Linux, very common reason for getting client denied by server configuration is AllowOverride definitions in /etc/apache2/conf.d/security, default AllowOverride there are set to None, i.e.:

<Directory />
AllowOverride None
Order Deny,Allow
Deny from all

If that's the case with you make sure you config rules to become:

# <Directory />
# AllowOverride None
# Order Deny,Allow
# Deny from all
# </Directory>

A very useful command to find where there is occurance of AllowOverride in Apache many configs is:

root@linux:~# cd /etc/apache2
root@linux:/etc/apache2# grep -rli AllowOverride *


Once you did all necessary config Restart Apache:

root@linux:~# /etc/init.d/apache2 restart

How to make wordpress Update Plugins prompt to permanently store password / Get rid of annoying updates wordpress prompt

Thursday, February 2nd, 2012

I'm managing few wordpress installations which requires me to type in:
Hostname , FTP Username and FTP Password , every single time a plugin update is issued and I want to upgrade to the new version.
Below is a screenshot of this annoying behaviour:

How to get rid of update plugins wordpress username password prompt

As you can see in the above screenshot, there is no way through Update Plugins web interface to store the password permanently. Hence the only option to store it permanently is to manually edit wp-config.php (file located in wordpress docroot, e.g. /path/to/wordpress/wp-config.php , inside the file find the line:

define ('WPLANG', '');

Right after it put a code similar to:

define('FS_METHOD', 'ftpsockets');
define('FTP_BASE', '/path/to/wordpress/');
define('FTP_CONTENT_DIR', '/path/to/wordpress/wp-content/');
define('FTP_PLUGIN_DIR ', '/path/to/wordpress/wp-content/plugins/');
define('FTP_USER', 'Username');
define('FTP_PASS', 'Password');
define('FTP_HOST', 'localhost');

Change the above defines:
path/to/wordpress/ – with your wordpress location directory.
Username and Password – with your respective FTP username and password. The localhost

That's all, from now onwards the User/Password prompt will not appear anymore. Consider there is a security downside of storing the FTP User/Pass in wp-config.php , if someone is able to intrude the wordpress install and access the documentroot of the wordpress install he we'll be able to obtain the ftp user/pass and log in the server directly via FTP protocol.

Tracking graphically MySQL, Apache and Network performance in web with Munin on Debian Linux

Saturday, March 19th, 2011


Munin is great software for surveillance software for your MySQL, Apache, Qmail, Postfix and many other of the classical daemon services which most of the Linux, BSD servers online are running on.

1. Munin on Debian Linux is really easy to be installed and comes to executing:

debian:~# apt-get install munin munin-node munin-plugins-extra

2. Link /var/www/munin/ to some VirtualHost or ServerHost
For instance if your munin is to be placed on the domain which has the DocumentRoot of /var/www

debian:~# cd /var/www
debian:/var/www# ln -sf /var/www/munin munin

3. Add some extra MySQL related plugins

To check whole list of pmunin plugins you can enable check in /etc/munin/plugins directory

Lets say our Munin will be providing statistics mainly for MySQL, enable this bunch of plugins:

cd /etc/munin/plugins
ln -s /usr/share/munin/plugins/mysql_ mysql_
ln -s /usr/share/munin/plugins/mysql_bytes mysql_bytes
ln -s /usr/share/munin/plugins/mysql_innodb mysql_innodb
ln -s /usr/share/munin/plugins/mysql_isam_space_ mysql_isam_space_
ln -s /usr/share/munin/plugins/mysql_queries mysql_queries
ln -s /usr/share/munin/plugins/mysql_slowqueries mysql_slowqueries
ln -s /usr/share/munin/plugins/mysql_threads mysql_threads

Though above command would enable mysql monitoring it will be not working out of the box. You will find in munin logs error like:

Missing dependency Cache::Cache at /usr/share/munin/plugins/mysql_ line 716."

To fix this install libcache-perl and libcache-cache-perl

apt-get install --yes libcache-perl libcache-cache-perl

Then regenerate munin plugin configuration issue cmd:

munin-node-configure --suggest --shell | sh

and restart Munin-node server

service munin-node restart

Munin Node should be able login to the MySQL server using the Debian System Maintenance user however if you should need to create a custom user you can add the following configuration to:



    user root
    env.mysqluser muninmonitor
    env.mysqlpassword Your-Secret-Password

4. Edit Munin config

Make sure you have at least the following variables enabled in /etc/munin/munin.conf

 dbdir  /var/lib/munin
 htmldir /var/cache/munin/www
 logdir /var/log/munin
 rundir  /var/run/munin

 tmpldir    /etc/munin/templates

includedir /etc/munin/munin-conf.d

    use_node_name yes


5. Add Munin Alias or Virtualhost

To make Munin Accessible from Webserver you need to at least add an alias create a file
/etc/apache2/conf.d/munin with following content:

vim /etc/apache2/conf.d/munin

Alias /munin /var/cache/munin/www

<Directory /var/cache/munin/www>
        Order allow,deny
        #Allow from localhost ::1
        Allow from all
        Options None
        php_value engine off

    <IfModule mod_expires.c>
        ExpiresActive On
        ExpiresDefault M310


If you want to access Munin from Apache subdomain create it lets say you want to access it via, use following config file:

vi /etc/apache2/sites-enabled/

<VirtualHost *>
   DocumentRoot /var/cache/munin/www
   <Directory />
       Options FollowSymLinks
       #AllowOverride All
       php_value engine off
   LogLevel debug
   CustomLog /var/log/apache2/munin/access.log combined
   ErrorLog /var/log/apache2/munin/error.log
   ServerSignature On
<Directory /var/cache/munin/www>
        Order allow,deny
        #Allow from localhost ::1
        Allow from all
        Options FollowSymlinks
        #AllowOverride All
        php_value engine off




6. Restart Apache;

debian:~# /etc/init.d/apache2 restart

Now to access the newly installed munin point your favorite browser to (either the subdirectory configured for access or the Virtualhost subdomain):


7. Protecting Munin with a password

As it could be a security leak to expose statistics regarding your server (Disk I/O, Memory, Load Avarage, Apache, MySQL Postfix) operations it is good security practice to protect munin with a password.

I've earlied blogged on how to protect your server munin web-statistics wtih an htaccess password (read it here)


Happy Monitoring