Merge pull request #561 from CEED/jeremy/is-deterministic

Ceed - add IsDeterministic

Ceed - add IsDeterministic

Merge pull request #560 from CEED/jeremy/diag-vec

LinearAssemble Improvements

Op - add AssembleAdd version of diagonal assembly functions, will be helpful for MFEM integration

Op - change LinearAssemble* to accept CeedVector instead of pointer to CeedVector, allows for less memory movement and interfaces with parent code better

Merge pull request #558 from CEED/jeremy/func-rename

Rename Functions

style - rename AssembleLinear* to LinearAssemble*

CPU Impl of AssemblePointBlockDiagonal (#503)

* Operator - add AssemblePointBlockDiagonal for CPU backends, with test

* CUDA - add point block diagonal not supported message

* make style

*

CPU Impl of AssemblePointBlockDiagonal (#503)

* Operator - add AssemblePointBlockDiagonal for CPU backends, with test

* CUDA - add point block diagonal not supported message

* make style

* Operator - improve point block description

* OCCA - explicitly remove OCCA fallback to CPU assembly functions, will update after new OCCA backend

* Op - remove gap removal in point block diagonal

* Op - update diagonal assembly documentation

* Update backends/ref/ceed-ref-operator.c

Co-authored-by: Jed Brown <jed@jedbrown.org>

* style - fix extra space in * with nopad

Co-authored-by: Jed Brown <jed@jedbrown.org>

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Merge branch 'master' into valeria/NSfixes

Merge pull request #513 from CEED/jeremy/restriction-no-interlace

Convert restriction to offsets

Merge pull request #515 from CEED/jeremy/basis-public

Basis - move some functions to public API

Basis - better protect basis data from user meddling

Co-Authored-By: Jed Brown <jed@jedbrown.org>

Basis - move some functions to public API

Restriction - convert restiction to use offsets instead of interlace mode. CPU and Python impl only, CUDA and MAGMA left to do.

Merge pull request #491 from CEED/jed/intel-compiler

Jed/intel compiler

pragma vector for Intel; pragma simd is deprecated

Pragma simd is documented without deprecation notice, but the
icc-19.05.281 warns of its deprecation.
https://software.intel.com/en-us/cpp-compiler

pragma vector for Intel; pragma simd is deprecated

Pragma simd is documented without deprecation notice, but the
icc-19.05.281 warns of its deprecation.
https://software.intel.com/en-us/cpp-compiler-developer-guide-and-reference-simdvector

One would think Intel's pragma ivdep would be similar to GCC ivdep,
but icc evidently has different semantics/miscompiles, as demonstrated
in the example, which is left in the source to protect an enterprising
future committer from adding ivdep.

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Merge pull request #486 from CEED/jeremy/ceed-view

Ceed - add CeedView()

Ceed - add CeedView()

Add VLA support for CUDA backends (#481)

* CUDA - add VLA support for CUDA backends

* Navier-Stokes - guard #include math.h for CUDA

* Navier-Stokes - fix struct definitions for code generatio

Add VLA support for CUDA backends (#481)

* CUDA - add VLA support for CUDA backends

* Navier-Stokes - guard #include math.h for CUDA

* Navier-Stokes - fix struct definitions for code generation

* Navier-Stokes - fix file location of mass QFunction

* Navier-Stokes - minor style consistency

* Navier-Stokes - more context sturct fixing

* Navier-Stokes - cast context to stop CUDA errors

* Navier-Stokes - change helper functions to inline to silence CUDA errors

* CUDA - clean up CEED_Q_VLA definition for cuda/gen

* Navier-Stokes - populate TODOs for undocumenced functions

* Doc - document libCEED macros

* CUDA - use -default-device for NVRTC

* Tests - add t507 to test VLA support

* CUDA - fix my bug in dim, Q1d for cuda/gen

* Tests - update tap/junit to reflect current CUDA capabilities

* make style

* CUDA - check output bases for dim, Q1d as well (this fixes multigrid example support)

* CUDA - fix readSliceQuads, not all arguments were defined

* Navier-Stokes - document all functions in Navier-Stokes QFunction files

* make style

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Merge pull request #446 from CEED/user-manual

Sphinx user manual published at libceed.readthedocs.io

doc: convert to Sphinx documentation at libceed.readthedocs.io

Some technical notes about the expanded docs/process:

* Doxygen is now restricted to API documentation. Sphinx docs are
incomplete

doc: convert to Sphinx documentation at libceed.readthedocs.io

Some technical notes about the expanded docs/process:

* Doxygen is now restricted to API documentation. Sphinx docs are
incomplete surrogates due to not hyperlinking code listings, though
we hope the Doxygen site can be removed eventually.

* PDF output uses XeTeX (unicode and OTF fonts) with TeX Gyre Pagella
and DejaVu Sans Mono. You may need to install these fonts in order
to build the PDF users manual.

* Obtaining the author list from Git has not worked on
ReadTheDocs (`git shortlog` is empty even though `git log` is not),
so we automatically generate it on developer machines with `make
doc`. If the author information is incorrect/mangled, edit .mailmap
to fix the mapping.

* Math semantics are based on the description here
https://github.com/sphinx-doc/sphinx/issues/3785

Sphinx chooses one of two setups for the maths.

* If there is a single equation, then we wrap the maths in
\begin{equation*} (or equation).

* If there are multiple equations (as determined by the presence of
an empty line), then we wrap the maths first in \begin{aligned}
and then in \begin{align*} (or align).

Co-authored-by: Jeremy L. Thompson <jeremy.thompson@colorado.edu>
Co-authored-by: Jed Brown <jed@jedbrown.org>

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doc: separate Doxygen groups by Public API/Backend API/Internal Functions

Helped-by: Valeria Barra <valeriabarra21@gmail.com>
Squashed-by: Jed Brown <jed@jedbrown.org>

Merge pull request #456 from CEED/jeremy/strided-restriction

Strided Restrictions

Interface - update constants to be const...ant

ElemRestriction - make strides const

Co-Authored-By: Jed Brown <jed@jedbrown.org>