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[WIP] Update to Sundials 5 #235

Merged
merged 129 commits into from
Apr 5, 2020
Merged

[WIP] Update to Sundials 5 #235

merged 129 commits into from
Apr 5, 2020

Commits on Feb 10, 2020

  1. set-up files

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  2. add new wrapper

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  3. update Sundials.jl

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  4. new wrapped API

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  5. update arkode api wrapper

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  6. remove unnecessary files

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  7. WIP: type updtes to cvode

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Commits on Feb 11, 2020

  1. update arkode wrapper

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  2. wip: cvode api update

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  3. WIP: cvodes api update

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  4. WIP: IDA api update

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  5. WIP: update kinsol api

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Commits on Feb 12, 2020

  1. WIP: libsundials api update (still to do)

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  2. WIP: update libsundials api

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Commits on Feb 13, 2020

  1. WIP: update sunlinsol api

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  2. WIP: update sunmatrix api

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  3. WIP: update sunnonlinsol api

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Commits on Feb 14, 2020

  1. WIP: to finish nvector api

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  2. WIP: to finish nvector api

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Commits on Feb 19, 2020

  1. WIP: to finish nvector api

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Commits on Feb 20, 2020

  1. WIP: update nvector api

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Commits on Feb 28, 2020

  1. finish IDA wrapper

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  2. updates to project toml

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  3. change sundilas import

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  4. add structs for linsolve and nonlinsolve

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  5. update handle

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  6. update includes

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  7. organize imports

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  8. update project.toml

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  9. update .gitignore

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  10. comment out code dependent on MPI_comm

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  11. update Sundials.jl

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  12. comment out c++ constant

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  13. update wrap file

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  14. update types and consts

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  15. add missing pointer

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  16. update for the use of SparseArrays

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  17. Update SparseArrays

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  18. add missing parenthesis

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  19. update nvector to use proper lib version

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  20. comment out klu linsol temporarily

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  21. update wrapped API

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  22. add ARKStepMemPtr in handle

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  23. update sundials wrap

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  24. update use of @logmsg

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  25. comment out CVODE.jl and IDA.jl

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  26. uncomment KLU solve calls

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  27. update comment in wrap_file

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  28. file organization refactor

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  29. add missing api call to nvector

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  30. move wrap sundials

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  31. update cvode api syntax

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  32. update .gitignore

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  33. update N_VGetArrayPointer_Serial function calls

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  34. update CVODE calls

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  35. comment out tests

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  36. update API signature

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  37. remove unused option

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  38. include sunnonlinson

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Commits on Feb 29, 2020

  1. enable CVODE tests

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  2. add missing release handle

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  3. WIP: idas API update

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  4. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  5. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  6. fix bad handle

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  7. Fix typo idas wrapper

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  8. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  9. correct typo

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  10. add predicate to top

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  11. add LinearAlgebra predicate

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  12. fix typo

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  13. update handle

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  14. fix outated references

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  15. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  16. Fix wrapper and SunBandMatrix example in Heat2D

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  17. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  18. update toml files

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  19. update grid for interpolations

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  20. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  21. fix handle name

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  22. ark step pointer update

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  23. update handle tests

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  24. activate working tests

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  25. update kinsol tests

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  26. WIP: Fix idas API, update SunBandMatrix

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  27. update ida common interface tests

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  28. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

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  29. add comment to test

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  30. rename Arkstep in the common interface

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  31. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

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  32. Fix linear algebra mul

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  33. Merge branch 'jd/sundials5' of https://github.com/Energy-MAC/Sundials.jl 

     into jd/sundials5
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  34. update tests

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  35. update API sunlinsol

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Commits on Mar 28, 2020

  1. Merge branch 'master' into jd/sundials5

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  2. Update integrator_utils.jl

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Commits on Mar 29, 2020

  1. enable arkstep test

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  2. update project.toml

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  3. add new version of wrap sundials

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  4. function name updates to ARKStep

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  5. update test code

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  6. function name changes

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  7. add julia 1.4 to travis

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Commits on Mar 30, 2020

  1. update clang script

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  2. rename test file

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  3. add erkstep api

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  4. add erkstep test

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  5. update runtests

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  6. update tests

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  7. WIP: Enable MRI API

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  8. update erkstep test

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  9. add MRI support

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  10. add mri test

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  11. remove call to free pointer

    @jd-lara
    jd-lara committed Mar 30, 2020
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  12. comment out ARK tests with seg faults

    @jd-lara
    jd-lara committed Mar 30, 2020
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Commits on Mar 31, 2020

  1. update test typo

    @jd-lara
    jd-lara committed Mar 31, 2020
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  2. update toml for sundials 5.2

    @jd-lara
    jd-lara committed Mar 31, 2020
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Commits on Apr 1, 2020

  1. update pointers for ARK integrators

    @jd-lara
    jd-lara committed Apr 1, 2020
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  2. add temp arkode wrapped API for update

    @jd-lara
    jd-lara committed Apr 1, 2020
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Commits on Apr 3, 2020

  1. Add ARKPostProcessFn manually

    @rodrigomha
    rodrigomha committed Apr 3, 2020
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  2. Add ERK and MRI MemPtr and handles

    @rodrigomha
    rodrigomha committed Apr 3, 2020
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  3. Update ARK API, new functions for 5.2 and ERKPtr update

    @rodrigomha
    rodrigomha committed Apr 3, 2020
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  4. update tests

    @rodrigomha
    rodrigomha committed Apr 3, 2020
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  5. Update MRI MemPtr

    @rodrigomha
    rodrigomha committed Apr 3, 2020
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  6. Merge pull request #1 from Energy-MAC/rh/update_erk_mri 

    [WIP] Update ERK and MRI
    @jd-lara
    jd-lara authored Apr 3, 2020
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  7. update readme

    @jd-lara
    jd-lara committed Apr 3, 2020
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Commits on Apr 5, 2020

  1. fix bad package designation for top

    @jd-lara
    jd-lara committed Apr 5, 2020
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  2. update toml files

    @jd-lara
    jd-lara committed Apr 5, 2020
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  3. remove temporary reference file

    @jd-lara
    jd-lara committed Apr 5, 2020
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