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4/4! - transform functions. (#232)

* fixed bohr/angstrom confusion in function description

* translations from mathematica to python arxiv1712.07067

* work on those notimplementeds

* WIP: decoder class adittion

* modified decoder class. extractor implemented

* no need for pauliaction function

* introduction of symbolic binary class - no more decoder class

* minor bugs fixed, applies binary rules to input now

* started programming the BinaryCode class, work in progress

* added count qubit function in binary operator, modified code.py

* fixed morning brain bugs

* implemented concatination and appending, not yet documented and debugged

* added _shift function to symbolicBinary and integer addition. modified the decoder shifter accordinly

* radd imul, NOT TESTED! - just copy paste should work?

* fixed small bugs, added default codes, created transform

* fixed the multiplication error and modified the transform code following mathematica code. it was giving wrong operators before, now the operators are fine but signs are wonky

* fixed the transform and all the places where we accidentally started to count qubit/fermion labels from 1 instead of 0

* bug fixes: ordering matters to detect which terms should cancel

* fixed code appending, introduced the integer multiplication (left+right) as a tool to append the same code intance several times

* modified the multiply by 0 and 1 behavior in SymbolicBinary. added tests for symbolicBinary. minor mods for python3 comp.

* fixed the condition for code concatenation, fixed a bug in checksum_code, added an error if qubit index in a code is out of bounds

* added comments to binary_operator, more test, evaluate function

* started writing documentations and clipping lines, writing out numpy

* merging with the merger

* updating binary operator based on comments

* updating the binary_ops

* updates based on comments

* init update

* moved bin... (continued)

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Source Files on job 814.2 (CC=gcc-4.9 CXX=g++-4.9 PYTHON=3.4)