stage1-controller.sh: Remove some old poor cleaning code

This code had portage bin path hard coded.  That path needed to be
changed for a new portage ebuild and install system.
After testing the origianl code and comparing it with some updated code
supplied by Douglas Freed.  It turned out both code chunks resulted in
nothing being cleaned.

Tested-by: Rick Zero_Chaos Farina <zerochaos@gentoo.org>
chroot-functions.sh: Remove --nodeps option from portage update.

This option prevented new deps from being installed with a portage upgrade.
chroot-functions.sh: Fix a mis-worded comment

Fixes: 900554b0b067e76d3806e520357d91adbfa4fa0c
Author: Jorge Manuel B. S. Vicetto (jmbsvicetto) <jmbsvicetto@gentoo.org> (Mon 19 Dec 2011 11:14:05 PM PST)
subject: Make sure portage updates itself at the start of stage1 - thanks to Zac for noticing the issue.
setup_pkgmgr(): WIP Make the 'build' use flag optional