Code

Add CvodeBlock and CvodeVisitor#1467

Code

Merged

JCGoran merged 55 commits intomasterBlueBrain/nmodl:masterfrom jelic/cvode_visitorsBlueBrain/nmodl:jelic/cvode_visitorsCopy head branch name to clipboardOct 28, 2024

+529-2

Commits

Commits on Sep 24, 2024

• Add DerivativeOriginalFunctionBlock and DerivativeVisitor

  JCGoran

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• Remove unused functions

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Commits on Sep 25, 2024

• Add test for DerivativeOriginalVisitor

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  b9f08d0

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• Fmt

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  c5dc45e

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• Fix leak

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  1dadd7a

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• Remove unused stuff

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• Update block description

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Commits on Sep 27, 2024

• Rename DERIVATIVE_ORIGINAL to CVODE

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Commits on Sep 30, 2024

• Finish renaming

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  044dfd9

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• Add item with Jacobian

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  50f38ce

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• Merge branch 'master' into jelic/cvode_visitors

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• Do not use an int but an enum-wrapped int

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  f82fe1f

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• Add support for diffing expressions with indexed vars

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  bd2fd36

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• Allow diffing implicit functions in differentiate2c

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  b082f0d

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• Simplify condition

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Commits on Oct 1, 2024

• Better testing

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• Add suggestions from code review

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Commits on Oct 2, 2024

• Add stepsize param to differentiate2c

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• Merge remote-tracking branch 'origin/master' into jelic/diff_implicit

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• Try Python 3.9 maybe?

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• Merge branch 'jelic/diff_indexed' into jelic/cvode_visitors

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• Merge branch 'jelic/diff_implicit' into jelic/cvode_visitors

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Commits on Oct 7, 2024

• Merge remote-tracking branch 'origin/master' into jelic/cvode_visitors

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• Put back Python 3.8 for now

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  4fde929

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• Remove remaining occurrences of DerivativeOriginalVisitor

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Commits on Oct 8, 2024

• WIP on CONSERVE

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Commits on Oct 9, 2024

• Ignore CONSERVE equations

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Commits on Oct 10, 2024

• Add documentation

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  321cdb3

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• Really delete CONSERVE statements this time

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  2984e46

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• Add test for CONSERVE statement

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  313330b

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• Fix variable naming

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  03b40e8

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• Update docstring

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  836ec74

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• Fix typo

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  9f6b751

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• Update docstring

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Commits on Oct 14, 2024

• Merge branch 'master' into jelic/cvode_visitors

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  96b1bb6

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• Add option for diffing IndexedName

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  ee9c187

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• Refactor

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  54a480e

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• Merge branch 'master' into jelic/cvode_visitors

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  32aa0cb

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• Enable sympy if NEURON codegen

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• Mark constructors as explicit

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  a3e1c6c

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Commits on Oct 15, 2024

• Merge branch 'master' into jelic/cvode_visitors

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  7177fb6

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• Update tests

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  659b018

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• Remove code duplication

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• Remove unused class field

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Commits on Oct 16, 2024

• Only enable sympy if DERIVATIVE block exists

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  8bc7d18

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• Rename CVODE subblocks with more apt names

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• nonstiff -> non_stiff

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Commits on Oct 21, 2024

• Get # of ODEs to solve

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• der_block(s) -> derivative_block(s)

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• get_name_map -> get_indexed_variables

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• Add check for multiple DERIVATIVE blocks

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  fd0c619

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• Update tests for CVODE

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• Update docs

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Commits on Oct 24, 2024

• Address comments from review

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  167d38f

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• Fix variable name

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