Devito

Fix `Manifest.in` for missing pypi files

**Full Changelog**: https://github.com/devitocodes/devito/compare/v4.8.4...v4.8.5

Changes

- compiler: Patch double buffering FabioLuporini (2247)
- compiler: Fix unexpansion w custom coeffs FabioLuporini (2242)

API

- api: Cleanup sparse setup for precomputed mloubout (2353)
- api: Add Hicks (sinc) interpolation api mloubout (2342)
- api: add priority to fd coefficients for mixed derivatives mloubout (2331)
- api: add support for 45 degree FD approx mloubout (2326)
- api: Fix custom fd for staggered mloubout (2323)
- api: Fix gpu-fit for TensorFunction mloubout (2285)
- misc: Switch off develop-mode FabioLuporini (2280)
- api: Minor fixes to arithmetic operations with scalar and tensors mloubout (2276)
- misc: Process args for subdimensions mloubout (2266)
- api: Add shift and fd order option to all FD operators: mloubout (2258)
- api: Always make subsampling factor symbolic mloubout (2259)
- api: prevent derivative shortcut with incompatible fd order mloubout (2254)

Examples

- examples: Interpolation tutorial notebook mloubout (2252)
- examples: Update MPI notebook to reference inner and outer halo terminology EdCaunt (2319)
- Correct the Poisson equation in the cavity flow example rafael-fuente (2308)
- example: small cleanup of tti for easier reuse mloubout (2294)

Documentation

- misc: Add MPI0 logging level georgebisbas (2130)
- examples: Fix typo in tutorial numbering EdCaunt (2356)
- misc: Docstring updates ZoeLeibowitz (2223)

Compiler

- compiler: Tweak check_stability to ensure cleanup is performed FabioLuporini (2335)
- compiler: Patch Guards.simplify_and FabioLuporini (2334)
- compiler: Enable generation of templated function declarations FabioLuporini (2333)
- compiler: Add optional pass for runtime stability check FabioLuporini (2327)
- compiler: Tweak Weights.value FabioLuporini (2328)
- compiler: Add Weights.value utility FabioLuporini (2322)
- compiler: Revamp lowering of IndexDerivatives FabioLuporini (2310)
- compiler: Revamp linearization FabioLuporini (2317)
- compiler: Adjust names used for cire-rotate dimensions EdCaunt (2305)
- compiler: Optimize normalize_reductions_dense FabioLuporini (2311)
- compiler: Generate less integer arithmetic FabioLuporini (2301)
- compiler: Misc codegen enhancements FabioLuporini (2300)
- compiler: Revamp data alignment FabioLuporini (2296)
- compiler: Improve IndexDerivative lowering FabioLuporini (2288)
- compiler: Misc code generation improvements FabioLuporini (2282)
- compiler: Fix handling of redundant derivatives FabioLuporini (2284)
- compiler: Introduce cluster-level Temp georgebisbas (2281)
- compiler: Add pass to abridge SubDimension names where possible EdCaunt (2269)
- compiler: Improve quality of generated code FabioLuporini (2263)
- compiler: Add missing numpy dtypes mloubout (2271)
- compiler: Machinery to generate vector types FabioLuporini (2253)
- compiler: Introduce symbolic fencing FabioLuporini (2244)
- compiler: Improve robustness of dspace derivation FabioLuporini (2238)

MPI

- misc: Add MPI0 logging level georgebisbas (2130)
- CI: revamp parallel marker mloubout (2347)
- mpi: Generate deterministic code for overlap mode georgebisbas (2303)
- MPI: Fix sparse subfunction handling when used without parent mloubout (2278)
- mpi: Fix haloupdate with inner dim [v2] FabioLuporini (2272)
- mpi: Add utility to get number of ranks on a single node mloubout (2265)
- dsl: Patch domain decomposition bug with SubDomains EdCaunt (2246)

Architectures and JIT

- Use get_nvidia_cc to get Nvidia gpu architecture ggorman (2343)
- arch: Add denormal flag for clang mloubout (2304)
- arch: patch compiler version mloubout (2297)
- example: small cleanup of tti for easier reuse mloubout (2294)
- arch: support rocm for gpu info mloubout (2261)
- compiler: add extra platforms and language to the custom compiler mloubout (2255)
- arch: Intel PVC mapping FabioLuporini (2215)

🐛 Bug Fixes

- compiler: Make code gen of elementary funcs dtype-aware FabioLuporini (2349)
- compiler: Tweak device-aware blocking FabioLuporini (2348)
- compiler: Hotfix unevaluation.Pow(1, ...) FabioLuporini (2321)
- compiler: Fix min/max reductions to be backend-portable FabioLuporini (2315)
- misc: Use `str` for generalization mloubout (2313)
- compiler: Block reductions irrespective of par-tile FabioLuporini (2309)
- compiler: Fix space conditions with loop blocking FabioLuporini (2302)
- data: Prevent allocator info to be lost at finalize mloubout (2295)
- misc: Fix gpu-fit for multiple tensors mloubout (2286)
- compiler: Fix minor codegen issues after pickling FabioLuporini (2283)
- misc: Replace dimension check in pull_dims EdCaunt (2275)
- misc: fix short/ushort codegen mloubout (2274)
- mpi: Fix haloupdate with inner dim [v2] FabioLuporini (2272)
- misc: fix UnboundTuple for None partile mloubout (2256)
- compiler: Hotfix compare-ops FabioLuporini (2251)
- compiler: Patch compare_ops for IndexDerivatives FabioLuporini (2250)
- dsl: Patch domain decomposition bug with SubDomains EdCaunt (2246)
- compiler: Patch symbolic coefficients over cross derivatives FabioLuporini (2248)
- compiler: Patch custom coefficients FabioLuporini (2243)

Testing

- CI: revamp parallel marker mloubout (2347)

Continuous Integration

- docker: fix oneapi setup mloubout (2351)
- ci: Update actions for nodejs version deprecation georgebisbas (2312)
- deps: Update rocm version mloubout (2291)
- compiler: Check DeviceFunctions for SubDimensions EdCaunt (2279)

Installation

- pip prod(deps): update ipyparallel requirement from <8.8 to <8.9 dependabot (2346)
- pip prod(deps): bump pyrevolve from 2.2.3 to 2.2.4 dependabot (2337)
- pip prod(deps): update ipyparallel requirement from <8.7 to <8.8 dependabot (2324)
- deps: prevent codecov error on local docker mloubout (2318)
- pip prod(deps): update pytest requirement from <8.0,>=7.2 to >=7.2,<9.0 dependabot (2299)
- deps: Update rocm version mloubout (2291)
- deps: support python 3.12 mloubout (2270)
- pip prod(deps): update anytree requirement from <=2.12.0,>=2.4.3 to >=2.4.3,<=2.12.1 dependabot (2268)
- pip prod(deps): update anytree requirement from <=2.11.1,>=2.4.3 to >=2.4.3,<=2.12.0 dependabot (2249)
- pip prod(deps): update anytree requirement from <=2.10.0,>=2.4.3 to >=2.4.3,<=2.11.1 dependabot (2241)

New Contributors

* rafael-fuente made their first contribution in https://github.com/devitocodes/devito/pull/2308
* ZoeLeibowitz made their first contribution in https://github.com/devitocodes/devito/pull/2223

**Full Changelog**: https://github.com/devitocodes/devito/compare/v4.8.3...v4.8.4

Changes

- Andrew add tests to test operator 2194 AndrewCheng827 (2207)

API

- api: enforce interpolation radius to be smaller than any input space … mloubout (2234)
- api: cleanup SubDimension and SubDomain mloubout (2219)
- misc: various Dimension internal fixes mloubout (2205)
- api: Cleanup and improve SubFunction mloubout (2198)
- builtins: Support batched initialize_function FabioLuporini (2176)
- api: Revamp interpolation/injection FabioLuporini (2128)

Documentation

- Update FAQ.md FabioLuporini (2195)
- documentation: update ci for new website setup mloubout (2221)

Compiler

- compiler: prevent multisubdimension expressions duplicates mloubout (2230)
- compiler: prevent reduction clause for perfect-enough outer loops mloubout (2226)
- compiler: Rework multi-level buffering FabioLuporini (2225)
- compiler: Fix issue 2194 AndrewCheng827 (2212)
- compiler: prevent radius dependent temps for sparse operations mloubout (2216)
- api: Cleanup and improve SubFunction mloubout (2198)
- api: Revamp interpolation/injection FabioLuporini (2128)

🐛 Bug Fixes

- compiler: Patch cluster.is_sparse FabioLuporini (2232)
- compiler: Fix reduction over sparse only mloubout (2220)
- compiler: prevent temporary for local reductions mloubout (2218)
- compiler: prevent radius dependent temps for sparse operations mloubout (2216)
- compiler: fix arg processing for empty arg update mloubout (2213)
- misc: various Dimension internal fixes mloubout (2205)

Continuous Integration

- ci: add intel missing gpu drivers mloubout (2227)

Installation

- pip prod(deps): update anytree requirement from <=2.9.0,>=2.4.3 to >=2.4.3,<=2.10.0 dependabot (2233)
- deps: fix intel drivers mloubout (2228)
- ci: add intel missing gpu drivers mloubout (2227)

**Full Changelog**: https://github.com/devitocodes/devito/compare/v4.8.2...v4.8.3

API

- dsl: Removed dynamic classes for AbstractFunctions (fixes memory leaks seen by some users) FabioLuporini (2190)
- api: Fix symbolic coefficients for cross derivatives mloubout (2185)
- api: Allow parametric par-tile as input FabioLuporini (2168)
- api: Use subs for origin in the case where index is a function mloubout (2120)
- compiler: Add utility function to normalize sympy arguments FabioLuporini (2125)

Examples

- Examples: Free surface for coupled TTI equations ofmla (2173)

Compiler

- compiler: Keep -qopenmp by default after icx 2023.2 georgebisbas (2164)
- compiler: Add opkwargs property to ArgumentsMap ccuetom (2142)
- compiler: Misc compiler fixes and improvements -- part II FabioLuporini (2138)
- compiler: Pass operator arguments to downstream operators ccuetom (2139)
- compiler: Improve lowering of IndexDerivatives FabioLuporini (2112)
- compiler: Misc compiler tweaks and improvements FabioLuporini (2136)
- compiler: Avoid generating collapse(1) FabioLuporini (2129)
- compiler: Patch pickling of GuardFactor and reconstruction FabioLuporini (2126)
- compiler: Introduce gpu-create parameter for buffers initialized on device ccuetom (2107)
- compiler: Change tile use in DeviceAcczier to allow multiple tile sizes gpc1064 (2095)
- compiler: Add host-*-pin handles; more volatile with pthreads FabioLuporini (2116)
- compiler: Support template parameters FabioLuporini (2105)

MPI

- mpi: Instrument compute0 core after specialising as ComputeCall georgebisbas (2143)
- mpi: Enhance flexibility for custom topologies georgebisbas (2134)
- mpi: Packed gathers and scatters FabioLuporini (2109)

GPU

- compiler: Change tile use in DeviceAcczier to allow multiple tile sizes gpc1064 (2095)

Architectures and JIT

- compiler: Enable AVX512 compiler support when available. ggorman (2184)
- arch: Correct `march` to `mcpu` for ppc raminammour (2174)
- misc: Add deviceid to configuration and enhance switchconfig ccuetom (2175)
- arch: Add ICX support georgebisbas (2051)

🐛 Bug Fixes

- dsl: Removed dynamic classes for AbstractFunctions FabioLuporini (2190)
- dsl: Prevent aggregation for symbolic coefficients mloubout (2182)
- api: Prevent factorization for symbolic coefficients mloubout (2179)
- compiler: Prevent Eq dims to be lost if only implicit mloubout (2169)
- compiler: Fix non-arithmetic distances mloubout (2165)
- compiler: Prevent adding breaking guard to nokey mloubout (2160)
- compiler: Add guards to prevent OOB when streaming buffers with ConditionalDimension ccuetom (2150)
- compiler: Fix CondDim's factor auto-override FabioLuporini (2154)
- compiler: Fix pickling of aliasing SparseFunction FabioLuporini (2148)
- compiler: Revert "compiler: Relax WaitLock regions in a ScheduleTree" FabioLuporini (2141)
- compiler: Patch pickling of GuardFactor and reconstruction FabioLuporini (2126)
- compiler: Fix OpenMP reductions in tandem with linearize=True FabioLuporini (2117)

Testing

- misc: fix openmp= deprecation mloubout (2186)
- Removing AWS ondemand gh-runners from CI ggorman (2155)

Continuous Integration

- CI: pytest setup fix mloubout (2177)
- docker: add some tweaks to Nvidia docker mloubout (2171)
- CI: Fix asv setup mloubout (2167)
- CI: Fix asv devito install mloubout (2166)
- ci: Add python 3.11 and minor CI fixing georgebisbas (2158)
- docker: revamp base deployment mloubout (2162)
- ci: switch to concurrency settings rather than extra action mloubout (2119)

Installation

- docker: Add intel advisor to icx image mloubout (2180)
- docker: Add some tweaks to nvidia docker mloubout (2171)
- docker: Switch to intelpython for icc/icx build mloubout (2172)
- docker: Revamp base deployment mloubout (2162)
- pip prod(deps): update distributed requirement from <2023.7 to <2023.8 dependabot (2161)
- pip prod(deps): update anytree requirement from <=2.8,>=2.4.3 to >=2.4.3,<=2.9.0 dependabot (2152)
- pip prod(deps): update distributed requirement from <2023.6 to <2023.7 dependabot (2145)
- pip prod(deps): update distributed requirement from <2023.5 to <2023.6 dependabot (2127)
- deps: sympy 1.12 compat mloubout (2123)
- pip prod(deps): update distributed requirement from <2023.4 to <2023.5 dependabot (2118)
- reqs: Move pyrevolve to optionals and introduce testing-only reqs georgebisbas (2096)
- reqs: Fix for matplotlib >=3.6.3 georgebisbas (2047)
- install: Make mpi4py portable across Intel and AMD FabioLuporini (2115)
- install: Overhaul Dockerfile.amd for MPI support FabioLuporini (2104)
- pip prod(deps): update distributed requirement from <2023.4 to <2023.5 dependabot (2110)
- pip prod(deps): update ipyparallel requirement from <8.6 to <8.7 dependabot (2106)

New Contributors
* gpc1064 made their first contribution in https://github.com/devitocodes/devito/pull/2095
* raminammour made their first contribution in https://github.com/devitocodes/devito/pull/2174

**Full Changelog**: https://github.com/devitocodes/devito/compare/v4.8.1...v4.8.2

Changes

Examples

- Examples: tweaked userapi free surface notebook to use MPI-safe implementation EdCaunt (1952)

Compiler

- compiler: Revamp compilation of halo exchanges FabioLuporini (2089)
- compiler: Do block with partial data reuse FabioLuporini (2094)
- compiler: Relax _mark_overlappable FabioLuporini (2069)

Architectures and JIT

- compiler: only use offloading flags for amd gpu not cpu mloubout (2087)
- arch: Support aws graviton mloubout (2080)

🐛 Bug Fixes

- compiler: Patch loop nests a-la PrecomputedInterpolation FabioLuporini (2102)
- compiler: Prevent topofusion of homogeneous sync Clusters FabioLuporini (2099)
- compiler: Patch local-SubDim heuristic for blocking FabioLuporini (2093)
- compiler: Fix and improve MIN/MAX codegen FabioLuporini (2076)
- symbolics: evaluate transpose on elements of tensors in case of deriv… mloubout (2072)
- compiler: Handle IndexedBase DDA across Jumps/Barriers FabioLuporini (2070)

Testing

- tests: Fix warnings georgebisbas (2079)

Continuous Integration

- ci: make aws ci parallel mloubout (2085)
- tests: Fix warnings georgebisbas (2079)
- arch: Support aws graviton mloubout (2080)

Installation

- pip prod(deps): update ipyparallel requirement from <8.5 to <8.6 dependabot (2090)
- docker: Updating AMD dockerfile to use Ubuntu 22.04. ggorman (2084)
- pip prod(deps): update distributed requirement from <2023.3 to <2023.4 dependabot (2074)

Changes

misc

- Updated contact information in the Code of Conduct. ggorman (2038)

API

- symbolics: use devito floor instead of Undefined Function mloubout (2052)
- api: Add dimension-wise summing builtin and tests mloubout (1989)

Examples

- Examples: Add Darcy flow example sashaowen (1998)
- examples: Add shallow water equations notebook AtilaSaraiva (1867)
- examples: invoke tti example with --constant argument ofmla (1914)

Documentation

- docs: Update compiler summary image georgebisbas (2037)
- misc: Update docker/README.md FabioLuporini (1972)
- Update FAQ.md FabioLuporini (2010)
- misc: Add FAQ page (lifted from the wiki) FabioLuporini (1976)

Compiler

- compiler: Patch data dependencies across Jumps FabioLuporini (2065)
- compiler: Implement graceful lowering of derivatives (aka "unexpansion") FabioLuporini (2060)
- compiler: Switch from aomp to clang for amd mloubout (2058)
- compiler: Extensions for parlang backends FabioLuporini (2042)
- compiler: Introduce int32 mode FabioLuporini (2041)
- compiler: Support shared memory in parlang backends FabioLuporini (2025)
- compiler: support for HPE Cray Clang compiler georgebisbas (2029)
- compiler: Better blocking heuristics and revamped linearization FabioLuporini (2020)
- compiler: Further misc improvements FabioLuporini (2012)
- compiler: Misc refactorings towards serialization support FabioLuporini (2009)
- Misc code generation improvements FabioLuporini (2001)
- compiler: Misc code generation fixes FabioLuporini (1994)
- compiler: Misc tweaks for backend-portable code generation FabioLuporini (1984)

MPI

- return slice(0,-1) for glb_slices if glb_numb empty on an mpi rank deckerla (2004)
- mpi: Fix data distribution bugs [part 2] rhodrin (1949)
- compiler: Fix MPI mode diag2 does not need a MPIRegion mmohrhard (1992)

Architectures and JIT

- arch: Add gcc 12 into legal configurations ziyiyin97 (2027)

🐛 Bug Fixes

- compiler: Add cluster guard to AliasKey for safety mloubout (2045)
- dependencies: sympy 1.11 compatibility mloubout (2005)
- ci: Add Arm skip option to tests mloubout (2035)
- compiler: Ensure order invariance of candidates in ReducerMap.unique ccuetom (2033)
- compiler: Fix subdim argument mismatch mloubout (2019)
- symbolics: Fix absolute value warning for integer input mloubout (2018)
- types: Minor fixes to sparse function indices and implicit dims mloubout (2011)
- compiler: Patch placement of ConditionalDimension with multi-Dimension conditions FabioLuporini (2008)
- compiler: Prevent reordering of existing temps in CSE mloubout (2002)
- return slice(0,-1) for glb_slices if glb_numb empty on an mpi rank deckerla (2004)
- mpi: Fix data distribution bugs [part 2] rhodrin (1949)
- dsl: Patched cross-derivative fd_order bug EdCaunt (1988)
- compiler: Check jit_dir existence when saving GlassOfWhiskey (1983)

Testing

- ci: Remove docker pruning from pytest-gpu FabioLuporini (2013)

Continuous Integration

- docker: add AMD HIP build to base docker mloubout (2055)
- CI: switch macos runner to latest gcc version mloubout (2046)
- ci: improve accuracy of codecov. ggorman (2040)
- ci: Streamlining ggorman (2028)
- ci: Remove dangling docker layers FabioLuporini (2017)

Installation

- pip prod(deps): update distributed requirement from <2023.2 to <2023.3 dependabot (2063)
- compiler: Switch from aomp to clang for amd mloubout (2058)
- docker: Switch to rocm 4.5.2 mloubout (2057)
- docker: add AMD HIP build to base docker mloubout (2055)
- pip prod(deps): update distributed requirement from <2022.13 to <2023.2 dependabot (2048)
- dependencies: sympy 1.11 compatibility mloubout (2005)
- pip prod(deps): update distributed requirement from <2022.12 to <2022.13 dependabot (2039)
- pip prod(deps): update distributed requirement from <2022.11 to <2022.12 dependabot (2031)
- pip prod(deps): update py-cpuinfo requirement from <=8 to <10 dependabot (2026)
- misc: Add packages to Docker base images FabioLuporini (2030)
- pip prod(deps): update distributed requirement from <2022.10 to <2022.11 dependabot (2021)
- pip prod(deps): update distributed requirement from <2022.9 to <2022.10 dependabot (1996)
- pip prod(deps): update distributed requirement from <2022.8 to <2022.9 dependabot (1987)