To Upgrade Bind first the named.boot file will need Converting as a parallel equivalent with the extension of �.conf�, to named.conf file by applying the named-bootconf.sh but you can do this task by hand if one wish to.
By manually changing the directory of /etc/named.conf file instead of using the Bind Configuration Tool will course this problem. The alterations you have made to the files are going to be overwritten on the next occasion Bind Configuration Tool is run. So for a starters it�s best to go with the Bind Config tool.
Here is BIND 9's the root directory for contrib/named-bootconf.sh and for directory in BIND 8 it�s the bin/named-bootconf.sh . The named-bootconf file looks at the input format in the named.boot then it can make a new output named.conf file
e.g
$ named-bootconf.sh named.conf