[NOMERGE] NMODL experiments#3659

Draft

JCGoran wants to merge 106 commits intomasterfrom

jelic/temp_attempt_modeldb

Commits on Jun 23, 2025

Generalize keywords
Goran Jelic-Cizmek
committed
Refactor sympy symbol mangling
Goran Jelic-Cizmek
committed

Commits on Jun 26, 2025

Merge branch 'master' into jelic/enable_nmodl_cvode
Goran Jelic-Cizmek
committed

Commits on Jul 24, 2025

Merge branch 'master' into jelic/enable_nmodl_cvode
Goran Jelic-Cizmek
committed
Fix mangling
Goran Jelic-Cizmek
committed
Fix for NMODL builtins
Goran Jelic-Cizmek
committed

Commits on Jul 25, 2025

Add coverage flags to please the coverage overlord
Goran Jelic-Cizmek
committed
Rework coverage
Goran Jelic-Cizmek
committed
Rework coverage
Goran Jelic-Cizmek
committed
Use readlink -f for getting the abs path to modfile
Goran Jelic-Cizmek
committed

Commits on Jul 26, 2025

Okay I give up on nrnivmodl
Goran Jelic-Cizmek
committed

Commits on Jul 28, 2025

Try using a different coverage database file
Goran Jelic-Cizmek
committed
Update gitignore
Goran Jelic-Cizmek
committed

Commits on Aug 4, 2025

Merge branch 'master' into jelic/refactor_coverage
JCGoran
authored
Merge remote-tracking branch 'origin/jelic/refactor_coverage' into jelic/refactor_coverage
Goran Jelic-Cizmek
committed
Merge branch 'jelic/refactor_coverage' into jelic/fix_nmodl_name_mangling
Goran Jelic-Cizmek
committed
Put back nrnivmodl
Goran Jelic-Cizmek
committed

Commits on Aug 5, 2025

Remove badly merged code
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/fix_nmodl_name_mangling
Goran Jelic-Cizmek
committed

Commits on Aug 25, 2025

Merge branch 'master' into jelic/fix_nmodl_name_mangling
Goran Jelic-Cizmek
committed

Commits on Aug 27, 2025

WIP on state_discontinuity
Goran Jelic-Cizmek
committed
Cleaner impl
Goran Jelic-Cizmek
committed
Use `print_vector_elements`
Goran Jelic-Cizmek
committed
Remove useless var
Goran Jelic-Cizmek
committed
Fix wrong params
Goran Jelic-Cizmek
committed
Actually compiles the mod file now
Goran Jelic-Cizmek
committed

Commits on Aug 28, 2025

Also mangle identifiers in `integrate2c`
Goran Jelic-Cizmek
committed
Fix GHA CI bug on MacOS
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_ci_again' into jelic/fix_nmodl_name_mangling
Goran Jelic-Cizmek
committed
Also need it in the CI
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_ci_again' into jelic/fix_nmodl_name_mangling
Goran Jelic-Cizmek
committed
Revert "Also mangle identifiers in `integrate2c`"
Goran Jelic-Cizmek
committed
Add test for `integrate2c` mangling
Goran Jelic-Cizmek
committed
Reapply "Also mangle identifiers in `integrate2c`"
Goran Jelic-Cizmek
committed
Fix formatting
Goran Jelic-Cizmek
committed

Commits on Aug 29, 2025

Merge branch 'master' into jelic/fix_nmodl_name_mangling
JCGoran
authored

Commits on Sep 2, 2025

Use `derivimplicit` if `cnexp` provides an unimplemented function
Goran Jelic-Cizmek
committed
Add test
Goran Jelic-Cizmek
committed

Commits on Sep 3, 2025

Add STATE so sympy doesn't raise an error
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/nmodl_state_disc_part1
Goran Jelic-Cizmek
committed
Implementation of the visitor
Goran Jelic-Cizmek
committed
Add tests for visitor
Goran Jelic-Cizmek
committed
Remove codegen parts for now
Goran Jelic-Cizmek
committed
Put back missing function
Goran Jelic-Cizmek
committed
Fix test description
Goran Jelic-Cizmek
committed
Add usecase test
Goran Jelic-Cizmek
committed
Add explanations for possible ambiguities
Goran Jelic-Cizmek
committed
Better comments
Goran Jelic-Cizmek
committed
Revert unrelated changes
Goran Jelic-Cizmek
committed
Add tests for state_discontinuity call
Goran Jelic-Cizmek
committed

Commits on Sep 9, 2025

Fix FROM iteration variable unrolling in KINETIC block
Goran Jelic-Cizmek
committed
Merge branch 'jelic/nmodl_state_disc_part1' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_lambertw' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_nmodl_name_mangling' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Enable NMODL NEURON codegen for wheels
Goran Jelic-Cizmek
committed

Commits on Sep 10, 2025

Generalize InitialBlockVisitor
Goran Jelic-Cizmek
committed
Logger not required here
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/fix_multiple_breakpoint_blocks
Goran Jelic-Cizmek
committed
KISS
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/fix_from_iteration
Goran Jelic-Cizmek
committed
Fix tests
Goran Jelic-Cizmek
committed
Some SFINAE so we don't get surprising results
Goran Jelic-Cizmek
committed
Fix broken test
Goran Jelic-Cizmek
committed
Add explicit METHOD to SOLVE if solving DERIVATIVE
Goran Jelic-Cizmek
committed

Commits on Sep 11, 2025

Update tests
Goran Jelic-Cizmek
committed
Update test/nmodl/transpiler/unit/visitor/implicit_method.cpp
JCGoran
authored
Implement feedback
Goran Jelic-Cizmek
committed
Merge remote-tracking branch 'origin/jelic/fix_implicit_solve_method' into jelic/fix_implicit_solve_method
Goran Jelic-Cizmek
committed

Commits on Sep 12, 2025

Fix tests
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_from_iteration' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_implicit_solve_method' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_multiple_breakpoint_blocks' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
WIP on recursive implementation
Goran Jelic-Cizmek
committed
Add other part that works
Goran Jelic-Cizmek
committed
Add usecase test
Goran Jelic-Cizmek
committed
Split into two tests
Goran Jelic-Cizmek
committed

Commits on Sep 23, 2025

Merge branch 'jelic/fix_multiple_breakpoint_blocks' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed

Commits on Sep 30, 2025

Always build debug
Goran Jelic-Cizmek
committed
Add NOCMODL as binary
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/nmodl_state_disc_part1
Goran Jelic-Cizmek
committed
Codegen `state_discontinuity` outside of NET_RECEIVE
Goran Jelic-Cizmek
committed
Merge branch 'jelic/nmodl_state_disc_part3' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Use `state_discontinuity` outside of NET_RECEIVE
Goran Jelic-Cizmek
committed
Show a warning if using `state_discontinuity` outside of `NET_RECEIVE`
Goran Jelic-Cizmek
committed
Use `state_discontinuity` outside of NET_RECEIVE
Goran Jelic-Cizmek
committed
Show a warning if using `state_discontinuity` outside of `NET_RECEIVE`
Goran Jelic-Cizmek
committed
Add TODO for coreNEURON
Goran Jelic-Cizmek
committed
Fix typo
Goran Jelic-Cizmek
committed
Add test for warning
Goran Jelic-Cizmek
committed

Commits on Oct 1, 2025

Merge branch 'jelic/nmodl_state_disc_part3' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed

Commits on Oct 3, 2025

Use better regex
Goran Jelic-Cizmek
committed
Revert "Use better regex"
Goran Jelic-Cizmek
committed
Reapply "Use better regex"
Goran Jelic-Cizmek
committed

Commits on Oct 6, 2025

Add codegen for implicit `diam` and `area`
Goran Jelic-Cizmek
committed
Remove `diam` and `area` from morphology usecase
Goran Jelic-Cizmek
committed
Make NMODL not throw an error if we re-assign a PARAMETER
Goran Jelic-Cizmek
committed
Merge branch 'master' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/fix_implicit_diam_area' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Merge branch 'jelic/param_assignable' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed

Commits on Nov 5, 2025

Merge branch 'master' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed

Commits on Nov 7, 2025

Merge branch 'master' into jelic/temp_attempt_modeldb
Goran Jelic-Cizmek
committed
Optimization 1
Goran Jelic-Cizmek
committed
DO not enable NMODL in pyproject
Goran Jelic-Cizmek
committed

Commits on Nov 8, 2025

Put back a bunch of changes
Goran Jelic-Cizmek
committed

Commits on Nov 11, 2025

Put back everything to test CI
Goran Jelic-Cizmek
committed