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Initial discrete adjoint capability with ERK #559

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Initial discrete adjoint capability with ERK #559

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Commits on Aug 20, 2024

  1. Merge branch 'feature/sunstepper' into feature/sunadjoint

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  2. move trystep flahs

    @balos1
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  3. cleanup

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  4. add yp arg

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  5. add setstoptime

    @balos1
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  6. rename SUNAdjointSolver

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  7. Merge branch 'feature/sunstepper' into feature/sunadjoint

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Commits on Aug 21, 2024

  1. store time with state data

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Commits on Aug 22, 2024

  1. add reinit function

    @balos1
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  2. rename local variables called adj_solver to adj_stepper

    @balos1
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  3. rename adjoint stepper functions to match sunstepper

    @balos1
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  4. add comment

    @balos1
    balos1 committed Aug 22, 2024
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  5. minor cleanup

    @balos1
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  6. more cleanup

    @balos1
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  7. minor fixes

    @balos1
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  8. Merge branch 'feature/sunstepper' into feature/sunadjoint

    @balos1
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  9. add missing SetForcing declaration

    @balos1
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  10. Merge branch 'feature/sunstepper' into feature/sunadjoint

    @balos1
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  11. Update src/sundials/sundials_stepper.c 

    Co-authored-by: Steven Roberts <roberts115@llnl.gov>
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  12. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
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Commits on Aug 27, 2024

  1. wip

    @balos1
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  2. wip

    @balos1
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  3. fix checkpoint throwaway

    @balos1
    balos1 committed Aug 27, 2024
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  4. add missing arkode functions

    @balos1
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  5. Apply suggestions from code review 

    Co-authored-by: Daniel R. Reynolds <reynolds@smu.edu>
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  6. Apply suggestions from code review 

    Co-authored-by: Daniel R. Reynolds <reynolds@smu.edu>
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  7. remove unused constants

    @balos1
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  8. rename function

    @balos1
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  9. add missing function in docs

    @balos1
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Commits on Aug 28, 2024

  1. update function names

    @balos1
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  2. add docs for the generic classes from other branch and update

    @balos1
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  3. add matvec transpose docs

    @balos1
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Commits on Aug 29, 2024

  1. Revert y prime argument

    @Steven-Roberts
    Steven-Roberts committed Aug 29, 2024
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  2. Fix compilation warnings

    @Steven-Roberts
    Steven-Roberts committed Aug 29, 2024
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  3. Apply formatter

    @Steven-Roberts
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  4. add other missing adjoint docs

    @balos1
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  5. document new sunmemory function

    @balos1
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  6. clarify

    @balos1
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  7. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  8. fix unit test for checkpoint scheme

    @balos1
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  9. copy test to examples

    @balos1
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Commits on Aug 31, 2024

  1. add cvodes example

    @balos1
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Commits on Sep 3, 2024

  1. doc clarifications

    @balos1
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  2. get cost at just T

    @balos1
    balos1 committed Sep 3, 2024
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Commits on Sep 4, 2024

  1. add param sensitivites to cvodes example

    @balos1
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  2. fix comment

    @balos1
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  3. Merge remote-tracking branch 'origin/develop' into feature/sunstepper

    @balos1
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  4. Merge branch 'feature/sunstepper' into feature/sunadjoint

    @balos1
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  5. Fix freeing of fused vectors

    @Steven-Roberts
    Steven-Roberts authored Sep 4, 2024
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  6. cleanup headers

    @balos1
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  7. remove unused functions

    @balos1
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  8. remove unused functions

    @balos1
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  9. remove unused error code

    @balos1
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  10. make sundials_datanode private

    @balos1
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  11. remove unused header

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Commits on Sep 13, 2024

  1. Fix unset variable when creating inner stepper

    @Steven-Roberts
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  2. Merge branch 'develop' into feature/sunstepper

    @Steven-Roberts
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Commits on Sep 16, 2024

  1. Merge branch 'develop' into feature/sunstepper

    @gardner48
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  2. apply formatting

    @gardner48
    gardner48 committed Sep 16, 2024
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  3. update f2003 interface

    @gardner48
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  4. Merge remote-tracking branch 'origin/develop' into feature/sunadjoint

    @balos1
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  5. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  6. apply patches

    @balos1
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  7. remove patch files accidentally committed

    @balos1
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Commits on Sep 17, 2024

  1. fix all warnings

    @balos1
    balos1 committed Sep 17, 2024
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  2. update docs

    @balos1
    balos1 committed Sep 17, 2024
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  3. cast int64_t to long long in printf for portability

    @balos1
    balos1 committed Sep 17, 2024
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  4. more long long casts

    @balos1
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  5. make them unsigned

    @balos1
    balos1 committed Sep 17, 2024
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  6. move declaration

    @balos1
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  7. no need to check against 0 with size_t

    @balos1
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  8. link sundials_adjoint in unit tests

    @balos1
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  9. link object files

    @balos1
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  10. cast capacity

    @balos1
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Commits on Sep 18, 2024

  1. fix integer sizes in hashmap

    @balos1
    balos1 committed Sep 18, 2024
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  2. format and spelling

    @balos1
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  3. remove comparisons to 0

    @balos1
    balos1 committed Sep 18, 2024
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  4. Changelog

    @Steven-Roberts
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  5. Merge branch 'develop' into feature/sunstepper

    @Steven-Roberts
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Commits on Sep 19, 2024

  1. Doc fixes

    @Steven-Roberts
    Steven-Roberts committed Sep 19, 2024
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  2. Reorder implementation specific methods

    @Steven-Roberts
    Steven-Roberts committed Sep 19, 2024
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Commits on Sep 26, 2024

  1. fix typo

    @balos1
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  2. Merge remote-tracking branch 'origin/develop' into feature/sunadjoint

    @balos1
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  3. fix compiler warnings

    @balos1
    balos1 committed Sep 26, 2024
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  4. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
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Commits on Sep 28, 2024

  1. ARKstepCreateSUNStepper -> ARKodeCreateSUNStepper

    @Steven-Roberts
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  2. Add missing file

    @Steven-Roberts
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  3. Add missing SUNStepper_SetForcing

    @Steven-Roberts
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  4. swig

    @Steven-Roberts
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  5. Add missing swig file

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Commits on Sep 30, 2024

  1. Merge branch 'develop' into feature/sunstepper

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Commits on Oct 1, 2024

  1. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  2. post-merge compile fixes

    @balos1
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  3. add constant for recompute fail

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Commits on Oct 2, 2024

  1. Finish updating docs after ARKodeCreateSUNStepper refactor

    @Steven-Roberts
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  2. Merge branch 'develop' into feature/sunstepper

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  3. Reference ARKodeCreateSUNStepper in the SUNStepper docs

    @Steven-Roberts
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  4. fix hashmap

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  5. Revert ops check change

    @Steven-Roberts
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  6. Mention MRIStepInnerStepper_CreateFromSUNStepper in changelog

    @Steven-Roberts
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  7. Typo fixes

    @Steven-Roberts
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  8. Remove extra include

    @Steven-Roberts
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  9. flush logging queues before aborting

    @balos1
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  10. more cleanup

    @Steven-Roberts
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  11. Move function to make diff nicer

    @Steven-Roberts
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  12. Improve error handling for MRI inner stepper wrapping SUNStepper

    @Steven-Roberts
    Steven-Roberts committed Oct 2, 2024
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  13. fix problem from reset change

    @balos1
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  14. a couple pr comments addressed

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  15. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
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  16. merge

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  17. document constant that was added

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  18. Merge branch 'feature/sunstepper' of github.com:LLNL/sundials into fe… 

    …ature/sunstepper
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  19. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  20. Remove SUNStepper_TryStep

    @Steven-Roberts
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  21. Revert trystep changes for xbraid

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  22. Apply formatter

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Commits on Oct 3, 2024

  1. Typo fix

    @Steven-Roberts
    Steven-Roberts committed Oct 3, 2024
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  2. Add missing period

    @Steven-Roberts
    Steven-Roberts committed Oct 3, 2024
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  3. Make return consistent

    @Steven-Roberts
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  4. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
    balos1 committed Oct 3, 2024
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  5. format

    @balos1
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  6. run swig

    @balos1
    balos1 committed Oct 3, 2024
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  7. Update swig/sundials/fsundials_stepper.i

    @Steven-Roberts
    Steven-Roberts authored Oct 3, 2024
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  8. Doc style fixes

    @Steven-Roberts
    Steven-Roberts committed Oct 3, 2024
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  9. Merge branch 'feature/sunstepper' of github.com:LLNL/sundials into fe… 

    …ature/sunstepper
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    Steven-Roberts committed Oct 3, 2024
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  10. generate proper swig interface

    @balos1
    balos1 committed Oct 3, 2024
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  11. change uint to int

    @balos1
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  12. update reset call

    @balos1
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  13. fix compiler warnings

    @balos1
    balos1 committed Oct 3, 2024
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  14. add profiler statements

    @balos1
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  15. format

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  16. remove uses of size_t that were not needed

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Commits on Oct 7, 2024

  1. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  2. fix some more warnings

    @balos1
    balos1 committed Oct 7, 2024
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  3. format

    @balos1
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  4. fix warning

    @balos1
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Commits on Oct 8, 2024

  1. more warnings fixed

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  2. Apply suggestions from code review 

    Co-authored-by: Daniel R. Reynolds <reynolds@smu.edu>
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  3. Merge branch 'develop' into feature/sunstepper

    @Steven-Roberts
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Commits on Oct 9, 2024

  1. remove .clangd and add it to gitignore

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  2. Apply suggestions from code review 

    Co-authored-by: Steven Roberts <roberts115@llnl.gov>
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  3. Apply suggestions from code review 

    Co-authored-by: Steven Roberts <roberts115@llnl.gov>
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  4. swig and format

    @balos1
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  5. update docs

    @balos1
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  6. use x.y.z

    @balos1
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  7. use SUN_RCONST

    @balos1
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  8. fix commented out timer code

    @balos1
    balos1 committed Oct 9, 2024
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  9. document naming convention for stlvector

    @balos1
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  10. fixing linking errors on windows

    @balos1
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  11. add obj back sunmemsys

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Commits on Oct 14, 2024

  1. Apply suggestions from code review 

    Co-authored-by: Daniel R. Reynolds <reynolds@smu.edu>
    @Steven-Roberts @drreynolds
    Steven-Roberts and drreynolds authored Oct 14, 2024
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  2. Fix copy paste error in MRIStepInnerStepper_CreateFromSUNStepper example

    @Steven-Roberts
    Steven-Roberts committed Oct 14, 2024
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  3. Only call SUNStepper_SetForcingFn if stepper provides setforcing func… 

    …tion
    @Steven-Roberts
    Steven-Roberts committed Oct 14, 2024
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  4. Document support for forcing

    @Steven-Roberts
    Steven-Roberts committed Oct 14, 2024
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  5. Merge branch 'develop' into feature/sunstepper

    @Steven-Roberts
    Steven-Roberts committed Oct 14, 2024
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  6. Apply formatter

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Commits on Oct 18, 2024

  1. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  2. comment out no-stages

    @balos1
    balos1 committed Oct 18, 2024
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Commits on Oct 19, 2024

  1. doc fixes

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Commits on Oct 21, 2024

  1. spelling

    @balos1
    balos1 committed Oct 21, 2024
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  2. simplify indexing

    @balos1
    balos1 committed Oct 21, 2024
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  3. define ASA

    @balos1
    balos1 committed Oct 21, 2024
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  4. uncomment fsal code

    @balos1
    balos1 committed Oct 21, 2024
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  5. guard subvector access

    @balos1
    balos1 committed Oct 21, 2024
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  6. clarify subvector size

    @balos1
    balos1 committed Oct 21, 2024
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  7. fix inconsistent notation

    @balos1
    balos1 committed Oct 21, 2024
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  8. fix missing declaration

    @balos1
    balos1 committed Oct 21, 2024
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  9. update checkpoint_start_idx to int64_t

    @balos1
    balos1 committed Oct 21, 2024
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  10. fix param description

    @balos1
    balos1 committed Oct 21, 2024
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  11. couple of small doc fixes

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Commits on Oct 22, 2024

  1. Merge branch 'develop' into feature/sunstepper

    @Steven-Roberts
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Commits on Oct 23, 2024

  1. Apply suggestions from code review 

    Co-authored-by: David Gardner <gardner48@llnl.gov>
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Commits on Oct 25, 2024

  1. Add missing header

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  2. Remove step_supports_forcing

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  3. Revert formatting change

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  4. Add public SUNStepper_FullRhs function

    @Steven-Roberts
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  5. Apply suggestions from code review for evolve and one step functions 

    Co-authored-by: David Gardner <gardner48@llnl.gov>
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    Steven-Roberts and gardner48 authored Oct 25, 2024
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  6. Use backticks for arguments

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  7. Remove unused SUNStepper_OneStep

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  8. Remove t0 arg from SUNStepper_Evolve

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  9. Formatter and swig

    @Steven-Roberts
    Steven-Roberts committed Oct 25, 2024
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  10. Moved duplicated SUNStepper overview to shared folder

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Commits on Oct 28, 2024

  1. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  2. Allow users to specify custom destroy function

    @Steven-Roberts
    Steven-Roberts committed Oct 28, 2024
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  3. Add missing SUNStepper_SetDestroyFn definition

    @Steven-Roberts
    Steven-Roberts committed Oct 28, 2024
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  4. NULL destroy operation on creation

    @Steven-Roberts
    Steven-Roberts committed Oct 28, 2024
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  5. Make argument names consistent in docs and header

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    Steven-Roberts committed Oct 28, 2024
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Commits on Oct 29, 2024

  1. Fix anonymous type linking error

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  2. Fix copy paste error

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  3. address documentation issues from review

    @balos1
    balos1 committed Oct 29, 2024
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  4. remove commented out code

    @balos1
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  5. Add arkProcessError calls to ARKodeCreateSUNStepper

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  6. Rename SUNStepper Jacobian typedefs

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  7. Add mode argument back to SUNStepper full RHS

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  8. Update docs for full RHS mode

    @Steven-Roberts
    Steven-Roberts committed Oct 29, 2024
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  9. Swig and format

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Commits on Oct 30, 2024

  1. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  2. add onestep function back

    @balos1
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  3. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  4. post merge fixes

    @balos1
    balos1 committed Oct 30, 2024
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  5. fix unit tests

    @balos1
    balos1 committed Oct 30, 2024
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  6. apply swig and format

    @balos1
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  7. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
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  8. Merge branch 'develop' into feature/sunstepper

    @balos1
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  9. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
    @balos1
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  10. move arkInit and ARKodePrintMem back

    @balos1
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  11. typo

    @balos1
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  12. remove TTYPE undef from header

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  13. checck node data in unit test

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  14. remove stop_reason in favor of last_flag

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Commits on Oct 31, 2024

  1. SUNAdjointCheckpointScheme doc clarification

    @balos1
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  2. add generic ASA overview in ASA section

    @balos1
    balos1 committed Oct 31, 2024
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  3. rename matvectranspose

    @balos1
    balos1 committed Oct 31, 2024
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  4. fix find/replace errors from changing 'basic' to 'fixed'

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    balos1 committed Oct 31, 2024
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Commits on Nov 1, 2024

  1. add band matrix transpose

    @balos1
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  2. format

    @balos1
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  3. format

    @balos1
    balos1 committed Nov 1, 2024
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  4. destroy AT

    @balos1
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  5. add mattransposevec for sparse matrix

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  6. fix more basic/fixed find-replace errors

    @balos1
    balos1 committed Nov 1, 2024
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  7. update swig readme to remove reference to old commit

    @balos1
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  8. format

    @balos1
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  9. Apply suggestions from code review 

    Co-authored-by: Steven Roberts <roberts115@llnl.gov>
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  10. fix spelling

    @balos1
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  11. rerun swig

    @balos1
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  12. format

    @balos1
    balos1 committed Nov 1, 2024
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  13. fix fsal indexing

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    balos1 committed Nov 1, 2024
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  14. check error codes

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    balos1 committed Nov 1, 2024
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  15. swig

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    balos1 committed Nov 1, 2024
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  16. Merge branch 'develop' into feature/sunstepper

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    balos1 authored Nov 1, 2024
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Commits on Nov 2, 2024

  1. format

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    balos1 committed Nov 2, 2024
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  2. Basic --> Fixed

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    balos1 committed Nov 2, 2024
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  3. reorder tests

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    balos1 committed Nov 2, 2024
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Commits on Nov 6, 2024

  1. switch order

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    balos1 committed Nov 6, 2024
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  2. Merge remote-tracking branch 'origin/feature/sunstepper' into feature… 

    …/sunadjoint
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    balos1 committed Nov 6, 2024
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  3. remove unnecessary if do_adjoint

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    balos1 committed Nov 6, 2024
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  4. fix matrix compatability check

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    balos1 committed Nov 6, 2024
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  5. bump answers

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    balos1 committed Nov 6, 2024
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  6. loosen tolerances for single precision

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    balos1 committed Nov 6, 2024
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Commits on Nov 7, 2024

  1. support integration in both directions

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    balos1 committed Nov 7, 2024
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Commits on Nov 8, 2024

  1. fix comments

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    balos1 committed Nov 8, 2024
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  2. factor out lotka volterra functions into their own header

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    balos1 committed Nov 8, 2024
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  3. rename test file

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    balos1 committed Nov 8, 2024
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  4. rename test file

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    balos1 committed Nov 8, 2024
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  5. bump answers

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    balos1 committed Nov 8, 2024
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Commits on Nov 9, 2024

  1. make unit test pass/fail

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    balos1 committed Nov 9, 2024
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Commits on Nov 11, 2024

  1. format

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    balos1 committed Nov 11, 2024
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  2. check backwards answer

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    balos1 committed Nov 11, 2024
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Commits on Nov 12, 2024

  1. update output files for new cost function

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    balos1 committed Nov 12, 2024
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  2. comment out backwards adjoint check

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    balos1 committed Nov 12, 2024
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