Pygsti

Added

- Adds no_mpi target, which installs all extras except for mpi4py

Fixed

- Fixes a number of other (rarely used) install target names.

Fixed

- fixes bugs in setup scripts that resulted in pip install failing to copy some essential files and users getting a "missing replib" error when trying to import pygsti.
- fixes compatibility issues with the more recent Numpy versions that caused flags.writeable errors when using MPI (see issue 119).
- fixes compatibility issues with the recently released msgpack package version 1.0 (and higher).

Added

- adds a new API which centers around Protocol objects, and makes it easier to run one or multiple protocols on a many-qubit quantum processor. See the new 00-Protocols.ipynb tutorial for more details.
- new benchmarking protocols, including volumetric benchmarks and mirror randomized-benchmarking.
- more gauge-invariant metrics are available within reports.

Changed

- improvements to multi-qubit GST capabilities.
- performance improvements, particularly in the area of working with large data-sets.
- HTML reports have been updated to by default use a new AJAX-free framework that eliminates many of the browser compatibility problems that users experienced in the past.
- Python version 2 support has been dropped. Python 3.5 and higher are now the only python versions pyGSTi officially supports.\
- the root package directory has been updated for greater simplicity and standardization with other packages. If you "install" new pyGSTi versions by running "git pull", you'll also need to run pip -e install . again or you'll get a warning message the pyGSTi cannot be found.

Fixed

- Fixed the issue of weird ('\*',) line labels in circuit construction routines when used with multi-qubit notation circuits, e.g. (0,)-labeled circuits getting erroneous ('\*',0)-labeled circuits created.
- Fixed bug in optools.fidelity for special case of trace-reducing rank-1 ops.
- Now handling sqrtm failure in optools._hack_sqrt as a warning instead of assertion error.

Fixed

- adds compensation for a scaling factor in matrixtools.unitary_superoperator_matrix_log which would cause an assertion to fail in some circumstances.

Changed

- pyGSTi is distributed with the Apache License version 2.0, included in LICENSE.