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JDBetteridge/merge pyop2 tsfc #3817
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Commits on Dec 8, 2020
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Merge pull request #604 from connorjward/fix-broken-api-build
Fix API documentation build problems
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Commits on Dec 14, 2020
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Connor Ward committed
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Commits on Dec 15, 2020
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Merge pull request #605 from connorjward/fix-new_hash-deprecation
Replace deprecated new_hash
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Commits on Dec 20, 2020
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Commits on Jan 6, 2021
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Co-authored-by: David A. Ham <[email protected]>
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Merge pull request #606 from connorjward/add-zero-kernel-cache
Add zero kernel cache
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Commits on Jan 22, 2021
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Merge pull request #608 from connorjward/test-on-merge
Test code on merge with master
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Commits on Apr 26, 2021
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Decorator version 5 changes the API in ways that break the argument type checking in PyOP2. We're therefore pinning on the version that works.
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Merge pull request #617 from connorjward/test-ci
Make PETSc and petsc4py for CI use Firedrake not pip
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Commits on May 11, 2021
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Merge pull request #618 from OP2/wence/fix/actions-doc-build
actions: Build docs at end of successful test run
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Commits on May 12, 2021
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Commits on May 14, 2021
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* Change requirements on loopy to point at the loopy sprint branch. * Replace lp.register_callable_kernel with lp.merge knl = lp.register_callable_kernel(knl, callee) is now knl = lp.merge([knl, callee]) . Reason given for loopy breaking back-compat: earlier they had a notion of a special "root_kernel" which only permitted one level of nesting loopy kernel calls and that was too restrictive. * Loopy callables: adapt to new API for registering. * Loopy Callables: register callables on a kernel not functions. * name is static property on SolveCallable and INVCallable * Loopy callables: register the callables rather than functions and remove the lookup functions. * Some progress * Loopy callables: Adapt API of with_types. * INVCallable has name "inverse" in loopy rep * Always pass a target when generating loopy kernels, otherwise we cannot merge them with wrapper kernels. * flake8 * Maybe generate call to inner kernel correctly Still doesn't work later. * Revert "Maybe generate call to inner kernel correctly" This reverts commit 009ca19f3fb133d53affeab53cd016c9b55620a9. * Revert "Revert "Maybe generate call to inner kernel correctly"" This reverts commit c85b60e6382b4762076b2744227fa5a6d903b830. * Remove dead code * rep2loopy: get name of callee kernel for matching the args. * Add missing code target * Maybe handle loopy argument access correctly dat.zero still doesn't work * Promote dats with shape (n,) to shape (n, 1) This enables sweeping indices to pick up a direct loop. * Set lang_version on all make_function calls * Fix disjoint arguments to C-string kernels * Resolve review comments * Rename function_args -> kernel_parameters * WIP Match args for all kernels in the callables table besides for LACallables? Why? * Only match args for callables that are CallableKernels. * Pin decorator Decorator version 5 changes the API in ways that break the argument type checking in PyOP2. We're therefore pinning on the version that works. * catch up with numpy type changes * Set within_inames_is_final on instructions * Squash numpy warning * Set strides on GlobalArgs * Caching: produce key for loop Programs. * Check if kernel is a loopy Program. * loopy.program.Program -> loopy.Program * Adapt to loopy interface changes. * Maintain loopy automatic reshaping (was in loopy) Everything in loopycompat.py file was in loopy/transform/callable.py but is removed in inducer/loopy#327. This commit maintains compatibility but should be phased out. * Fix loopy.program -> loopy.translation_unit * dont lint automatic reshaping (was in loopy) * Lint to pass flake8 * Fix loopy automatic reshaping (was in loopy) Changes were copied from an out of date branch by accident. * Fix type case error (recursively) This mirrors inducer/loopy#326 * ? Maybe fix the last dimension error mismatch. Not sure this will break things in other places. * Codegen: Don't merge indices of extent 1, so that the instructions are schedulable. This will fix e.g. the failure of tests/extrusion/test_steady_advection_2D_extr.py * Testing: Update loopy branch * Squashed commit of the following: commit 5a89bfc Author: Connor Ward <[email protected]> Date: Mon May 10 10:44:33 2021 +0100 Use Firedrake PETSc and petsc4py commit 948cb7d Author: David Ham <[email protected]> Date: Wed Apr 21 13:30:50 2021 +0100 Pin decorator Decorator version 5 changes the API in ways that break the argument type checking in PyOP2. We're therefore pinning on the version that works. commit 121c2a6 Author: David Ham <[email protected]> Date: Wed Apr 21 13:45:58 2021 +0100 catch up with numpy type changes * Revert "Squashed commit of the following:" This reverts commit bd1916142f883d6a4f0371ca6de2c344f0c7e78a. * Squashed commit of the following: commit 9a90c9f Merge: f1daf21 c8d7ff6 Author: Lawrence Mitchell <[email protected]> Date: Tue May 11 12:07:33 2021 +0100 Merge pull request #618 from OP2/wence/fix/actions-doc-build actions: Build docs at end of successful test run commit c8d7ff6 Author: Lawrence Mitchell <[email protected]> Date: Tue May 11 11:41:20 2021 +0100 actions: Build docs at end of successful test run commit f1daf21 Merge: d0cc348 5a89bfc Author: Lawrence Mitchell <[email protected]> Date: Mon May 10 20:32:24 2021 +0100 Merge pull request #617 from connorjward/test-ci Make PETSc and petsc4py for CI use Firedrake not pip commit 5a89bfc Author: Connor Ward <[email protected]> Date: Mon May 10 10:44:33 2021 +0100 Use Firedrake PETSc and petsc4py commit 948cb7d Author: David Ham <[email protected]> Date: Wed Apr 21 13:30:50 2021 +0100 Pin decorator Decorator version 5 changes the API in ways that break the argument type checking in PyOP2. We're therefore pinning on the version that works. commit 121c2a6 Author: David Ham <[email protected]> Date: Wed Apr 21 13:45:58 2021 +0100 catch up with numpy type changes * Lint. * Jenkins * Make import global. * Drop package branches. Co-authored-by: Sophia Vorderwuelbecke <[email protected]> Co-authored-by: Lawrence Mitchell <[email protected]> Co-authored-by: Connor Ward <[email protected]> Co-authored-by: David Ham <[email protected]> Co-authored-by: Kaushik Kulkarni <[email protected]>
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codegen/api: New PermutedMap class corresponding to map o permutation
Something like this will be necessary if we want general symmetry group stuff in the maps. It is also convenient if you want to stage in a permutation from the canonical FIAT order.
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codegen: No more regular expressions in node renaming
Instead of pattern matching on node names to determine whether nodes should be relabelled, just use a name generation scheme for everything. Now we have one less problem.
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Commits on Jun 9, 2021
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Merge pull request #623 from OP2/connorjward/time-compilation
Add PETSc decorator to compile
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Commits on Jun 30, 2021
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Merge pull request #627 from OP2/new-loopy-master
More loopy interface changes: arg_id_to_val -> arg_id_to_arg
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Commits on Jul 21, 2021
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This previously relied on the old petsc Python package which we no longer use.
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Merge pull request #620 from OP2/fs_filter
add standard set operations
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Commits on Jul 22, 2021
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Commits on Jul 27, 2021
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Merge pull request #632 from OP2/connorjward/fix-pyop2clean
Fix pyop2-clean
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Merge pull request #629 from OP2/Melina97/fix_cache_problem
Melina97/fix cache problem
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Merge pull request #634 from OP2/connorjward/call-apt-update
Call apt update in workflow
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Commits on Aug 11, 2021
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* Lint fix * No longer need _copy_parloop * Unnecessary parloops removed * Add condition to __iadd__ and __isub__ * Minor correction * Allow data conversion * Use _check_shape * Remove _iop_kernel * Add casting=unsafe * Corrections * Only consider owned indices for zero and copy w. subset * Add compat checks to zero and copy Also reverted work on __iadd__, __isub__ etc as these were breaking and feature incomplete (we did not implement __add__ etc). These should be covered in a separate PR. * Add halo optimisations to dat zero and copy Co-authored-by: Melina Giagiozis <[email protected]> Co-authored-by: Connor Ward <[email protected]>
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Merge pull request #621 from OP2/wence/feature/composed-map
Permuted maps
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Commits on Aug 18, 2021
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Commits on Sep 9, 2021
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Fix compilation failures on Mac M1 machines
`-march=native` doesn't work on M1 at present.
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Commits on Sep 23, 2021
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Merge pull request #636 from danshapero/m1-fixes
Fix compilation failures on Mac M1 machines
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Commits on Oct 5, 2021
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Merge pull request #639 from OP2/connorjward/refactor-base.py
Major refactor of base.py etc
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Merge pull request #637 from OP2/connorjward/fix-subset-kwarg-error
Make Global.zero accept same kwargs as Dat.zero
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Bug fix empty extruded set with variable layers
This would fail if the provided layers array has zero length (e.g. for boundary facets on an interior parallel domain) as numpy does not allow you to call min() on such an array.
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Merge pull request #641 from OP2/rebase-ext-mesh-fix
Bug fix empty extruded set with variable layers
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Commits on Oct 12, 2021
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Commits on Oct 14, 2021
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Merge pull request #642 from OP2/connorjward/make-test-matrices-work-…
…in-parallel Matrix tests run correctly in parallel
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Commits on Nov 4, 2021
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codegen: Fix issue with permuted maps
If we have a parallel loop with map1 = Map(...) map2 = PermutedMap(map1, ...) par_loop(..., d1(..., map1), d2(..., map2)) The codegen should only require one global argument (for the data from map1) since map2 is a local permutation of the global argument. This was being provided by runtime argument passing, but not by the code generator, which treated map1 and map2 as distinct things. To fix this, create a new PMap wrapper for Map objects in the codegen builder that just know how to index themselves through their permutation. Now we can share the underlying global map data between the two local map accesses.
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Commits on Nov 8, 2021
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Merge pull request #643 from OP2/wence/fix/permuted-map
Wence/fix/permuted map
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Commits on Nov 21, 2021
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Merge branch 'DataCarrier-object-versionning' of github.com:OP2/PyOP2…
… into DataCarrier-object-versionning
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Commits on Jan 28, 2022
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The fundamental idea behind the changes introduced by this commit are: - The code generation component of what PyOP2 does is now user-facing (via the GlobalKernel object). This permits the user to add their own caching for this object. - Code generation no longer requires any data structures to take place.
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Commits on Feb 3, 2022
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Merge pull request #624 from OP2/connorjward/purge-parloop-data-refs
Purge parloop data references
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Commits on Feb 4, 2022
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Merge pull request #644 from OP2/cached-decorator
Add disk_cached and cached decorators
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Commits on Feb 8, 2022
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Fix dtypes for COFFEE local kernel
It turns out that my method for determining the dtypes for a COFFEE local kernel was not robust so now it is treated the same as a CStringLocalKernel.
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Merge pull request #647 from OP2/fix-dtype-bug
Fix dtypes for COFFEE local kernel
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Commits on Feb 9, 2022
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Merge pull request #649 from OP2/fix-2341
Uniquify args for halo exchanges
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Commits on Feb 18, 2022
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Fix deadlocking disk_cached decorator
Previously we would be getting a deadlock if func threw an exception. Calling it collectively fixes that.
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Commits on Mar 4, 2022
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Merge pull request #656 from OP2/sv/set-targets
Set targets from configuration
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Merge pull request #650 from OP2/connorjward/fix-deadlocking-decorator
Fix deadlocking disk_cached decorator
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Merge pull request #659 from OP2/connorjward/parloop-dtype-check
Add dtype check for parloops
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Merge pull request #660 from OP2/sv/fix-compiler-sniff
Compilation: fix the compiler sniffing for apple.
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Logging: add PETSc events into the inverse and solve callables. The m…
…emory for the events is allocated in C.
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Logging: Generate events for logging all local kernels/callables in p…
…ython and the set the correct id in the ddl for the C kernel.
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Merge pull request #658 from OP2/sv/profiling-local-kernels-trackevents
Profile local kernels and set events on dll
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Merge pull request #662 from OP2/hardcode_m1_library
pass gcc dir to linker on M1
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Merge pull request #663 from OP2/mapper_init_defn
[loopycompat.Mappers]: call super's constructor
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Merge pull request #664 from OP2/sv/mac-gnu
PyOP2 compilation: add a pathway to compile with gcc on Mac.
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Merge branch 'DataCarrier-object-versionning' of github.com:OP2/PyOP2…
… into DataCarrier-object-versionning
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Merge pull request #579 from OP2/DataCarrier-object-versionning
Object versioning for DataCarrier object
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Merge pull request #670 from OP2/fix-mixed-dat-object-versioning
Fix Vec's state counter for MixedDat
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Made a mistake in the compiler refactor + New linting rules (#672)
* Fix mistake in init * Fix code for new linting rules
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Merge pull request #673 from OP2/connorjward/enable-loopy-caching
Loopy caching fixes
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Merge pull request #674 from OP2/ksagiyam/composed_map
add ComposedMap
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Merge pull request #678 from OP2/JDBetteridge/purge_distutils
Remove distutils from PyOP2 (duplicate of #652)
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Merge pull request #679 from OP2/JDBetteridge/ci_python_matrix
Add matrix to CI
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Merge pull request #675 from OP2/ksagiyam/periodic_extrusion
Ksagiyam/periodic extrusion
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Add 60 min job timeout and 10 min pytesttimeout as pytest-timout does…
… not kill hanging job
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Merge pull request #682 from OP2/JDBetteridge/add_CI_timeout
Add timeout to CI tests
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Merge pull request #680 from OP2/connorjward/freeze-halos
Add halo freezing
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Merge pull request #685 from OP2/connorjward/extra-global-methods
Add some dummy Dat methods to Global
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Merge pull request #676 from OP2/JDBetteridge/clean_comms
JDBetteridge/clean comms
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GCC 9 doesn't emit full version with
dumpfullversion
(#686)* GCC 9 doesn't emit full version with , I previously (wrongly) assumed this was an old GCC * Tidy check
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Merge pull request #690 from OP2/JDBetteridge/global_fix
Add comm to Global constructor in dat op
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Merge pull request #692 from OP2/JDBetteridge/delay_comm_free
More deadlock fixes
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Merge pull request #694 from OP2/connorjward/fix-dat-versioning
Make data_with_halos increment dat_version
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Add simple halo methods to Global and DatView (#695)
* Add simple halo methods to Global and DatView * Add data_wo accessors to Global and Dat
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Merge pull request #700 from OP2/connorjward/test-updated-petsc
Fix petsc4py build and drop Python 3.7
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Merge pull request #699 from OP2/connorjward/deprecation-warning
Fix loopy deprecation warning
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Global with no comm is a Constant (#701)
--------- Co-authored-by: Connor Ward <[email protected]> Co-authored-by: David A. Ham <[email protected]>
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Insert zero blocks on matrix diagonals (#704)
* Insert zero blocks on matrix diagonals * Pin Cython version to let petsc4py build
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Fix halo exchanges for MixedDats in parloops (#710)
* Fix mixed halo exchanges * Remove unnecessary print statement * fixup
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Pass objects to local kernels without packing and unpacking. --------- Co-authored-by: Connor Ward <[email protected]>
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sparsity: repack rmaps, cmaps, and iteration_regions in maps_and_regions
- maps_and_regions[(i, j)] = list of (rmap, cmap, iteration_regions) - virtually noop
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sparsity: change interface to directly accept maps_and_regions
- deprecate some convenience Sparsity construction features
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Merge pull request #717 from OP2/JDBetteridge/angus-g-fix
Fix Comm Bug
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Change for MixedMesh implementation (#718)
* fix Parloop kernel arg ordering * change for mixed mesh implementation
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Merge pull request #716 from OP2/emmarothwell1/restricted_function_sp…
…ace_review RestrictedFunctionSpace: Added in changes to Dataset / Set for use in RestrictedFunctionSpace in firedrake
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Fix for massively parallel performance regression (#720)
* Fix for massively parallel performance regression
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Merge pull request #721 from OP2/JDBetteridge/numpy2_rebase
Support numpy 2.0
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Merge pull request #722 from OP2/JDBetteridge/reset_numbering
Reset numbering when generating
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composed map: add permute method (#723)
--------- Co-authored-by: Connor Ward <[email protected]>
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Remove comm hash and add per-comm caches (#724)
--------- Co-authored-by: David A. Ham <[email protected]> Co-authored-by: Connor Ward <[email protected]>
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