clean up deprecated functions in Reaction.py
clean up deprecated functions in Reaction.py

JuBra/cobrapy,aebrahim/cobrapy,aebrahim/cobrapy,jerkos/cobrapy,jeicher/cobrapy,zakandrewking/cobrapy,jerkos/cobrapy,JuBra/cobrapy,jeicher/cobrapy,zakandrewking/cobrapy