By default, the Beaglebone Black with Debian as of this writing doesn’t have packages like python-scipy in the repositories. This is simple to fix by enabling the “backports” repo as follows.

On the Beaglebone /etc/apt/sources.list uncomment the line

deb http://ftp.debian.org/debian wheezy-backports main contrib non-free

On the Beaglebone

apt update

and then you may find the packages you wanted.

Note: Some of the Python packages might be of versions older than you’d like (e.g. Scipy 0.10).

python -m pip install --update scipy

may help those particular cases.