pear does not exist on your server, this is what happened:
/usr/local/bin/pear and/or /usr/bin/pear were manually removed.
/usr/local/lib/php/.registry and/or /usr/lib/php/.registry exist.
make install, the existence of those .registry directories cause the PEAR shell archive to think PEAR is already installed, so it skips the remainder of the PEAR build. Therefore, the bin/ files are not rebuilt.
However, if you move or delete the .registry files so that the build will complete, you lose the data about PEAR modules installed on the system.
bin/ that is missing on your server, and place it in the proper location on your system. Copyright © cPanel 2000-2009.