Generate AST from rxd rates, reactions and mulitcompartment reactions. by adamjhn · Pull Request #3341 · neuronsimulator/nrn

adamjhn · 2025-02-27T18:16:44Z

No description provided.

azure-pipelines · 2025-02-27T19:01:39Z

✔️ 3d62815 -> Azure artifacts URL

codecov · 2025-02-27T19:03:26Z

Codecov Report

❌ Patch coverage is 7.93388% with 557 lines in your changes missing coverage. Please review.
✅ Project coverage is 68.03%. Comparing base (d71477f) to head (f14c250).

Files with missing lines	Patch %	Lines
share/lib/python/neuron/rxd/region.py	2.45%	199 Missing ⚠️
share/lib/python/neuron/rxd/rxdmath.py	13.67%	101 Missing ⚠️
share/lib/python/neuron/rxd/reaction.py	4.68%	61 Missing ⚠️
share/lib/python/neuron/rxd/rxd.py	11.11%	56 Missing ⚠️
share/lib/python/neuron/rxd/species.py	9.80%	46 Missing ⚠️
.../lib/python/neuron/rxd/multiCompartmentReaction.py	10.25%	35 Missing ⚠️
share/lib/python/neuron/rxd/rate.py	8.57%	32 Missing ⚠️
share/lib/python/neuron/nmodl/ode.py	3.57%	27 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #3341      +/-   ##
==========================================
- Coverage   68.34%   68.03%   -0.31%     
==========================================
  Files         701      701              
  Lines      112265   112867     +602     
==========================================
+ Hits        76731    76793      +62     
- Misses      35534    36074     +540

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azure-pipelines · 2025-03-03T18:51:36Z

✔️ b057e1b -> Azure artifacts URL

azure-pipelines · 2025-03-04T20:38:29Z

✔️ cc6a6d2 -> Azure artifacts URL

azure-pipelines · 2025-03-04T23:40:17Z

✔️ 8008f9d -> Azure artifacts URL

…ation file. From https://about.readthedocs.com/blog/2024/12/deprecate-config-files-without-sphinx-or-mkdocs-config/

sonarqubecloud · 2025-03-18T18:27:40Z

Quality Gate passed

Issues
26 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
5.8% Duplication on New Code

See analysis details on SonarQube Cloud

azure-pipelines · 2025-04-29T15:55:26Z

✔️ 6cdb6d5 -> Azure artifacts URL

sonarqubecloud · 2025-05-06T15:15:33Z

Quality Gate passed

Issues
26 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
5.8% Duplication on New Code

See analysis details on SonarQube Cloud

azure-pipelines · 2025-05-06T16:37:37Z

✔️ 1a8270b -> Azure artifacts URL

…d_ast

azure-pipelines · 2026-04-15T13:36:58Z

Azure Pipelines: Successfully started running 1 pipeline(s).

codacy-production · 2026-04-15T13:41:53Z

Up to standards ✅

🟢 Issues 0 issues

Results:
0 new issues

View in Codacy

🟢 Metrics 236 complexity · 18 duplication

Metric Results

Complexity 236

Duplication 18

View in Codacy

_{TIP This summary will be updated as you push new changes. Give us feedback}

azure-pipelines · 2026-04-15T14:17:44Z

✔️ 67275cb -> Azure artifacts URL

github-actions · 2026-04-28T18:30:14Z

✔️ cca353c -> artifacts URL

azure-pipelines · 2026-04-28T18:42:34Z

✔️ cca353c -> Azure artifacts URL

azure-pipelines · 2026-04-28T22:05:23Z

✔️ 5e3d362 -> Azure artifacts URL

github-actions · 2026-04-28T22:12:52Z

✔️ 5e3d362 -> artifacts URL

azure-pipelines · 2026-04-29T15:18:19Z

✔️ e3e97b1 -> Azure artifacts URL

github-actions · 2026-04-29T15:33:37Z

✔️ e3e97b1 -> artifacts URL

sonarqubecloud · 2026-04-29T18:16:40Z

Quality Gate passed

Issues
42 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
1.9% Duplication on New Code

See analysis details on SonarQube Cloud

azure-pipelines · 2026-04-29T18:41:06Z

✔️ 76ec68c -> Azure artifacts URL

github-actions · 2026-04-29T18:43:10Z

✔️ 76ec68c -> artifacts URL

sonarqubecloud · 2026-06-19T19:40:53Z

Quality Gate passed

Issues
42 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
1.9% Duplication on New Code

See analysis details on SonarQube Cloud

github-actions · 2026-06-19T20:09:37Z

✔️ 3f6b69a -> artifacts URL

azure-pipelines · 2026-06-19T20:09:39Z

✔️ 3f6b69a -> Azure artifacts URL

Support Kineitic Block AST compilation.

azure-pipelines · 2026-08-11T20:16:31Z

✔️ 2c3c692 -> Azure artifacts URL

github-actions · 2026-08-11T20:19:24Z

✔️ 2c3c692 -> artifacts URL

…d_ast

github-actions · 2026-08-11T21:22:23Z

✔️ ac0e6ff -> artifacts URL

azure-pipelines · 2026-08-11T21:29:22Z

✔️ ac0e6ff -> Azure artifacts URL

azure-pipelines · 2026-08-12T18:08:38Z

✔️ c9ac9c5 -> Azure artifacts URL

sonarqubecloud · 2026-08-12T20:11:44Z

Quality Gate passed

Issues
26 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
1.9% Duplication on New Code

See analysis details on SonarQube Cloud

azure-pipelines · 2026-08-12T20:32:08Z

✔️ f14c250 -> Azure artifacts URL

github-actions · 2026-08-12T20:36:24Z

✔️ f14c250 -> artifacts URL

Generate AST from rxd rates, reactions and mulitcompartment reactions.

3d62815

adamjhn added the rxd reaction-diffusion label Feb 27, 2025

adamjhn requested a review from ramcdougal February 27, 2025 18:16

Formatting.

b057e1b

Fomatting.

cc6a6d2

Formatting.

8008f9d

Fix Deprecation of projects using Sphinx without an explicit configur…

138195d

…ation file. From https://about.readthedocs.com/blog/2024/12/deprecate-config-files-without-sphinx-or-mkdocs-config/

Merge branch 'master' into rxd_ast

6cdb6d5

Merge branch 'master' into rxd_ast

1a8270b

adam added 4 commits March 13, 2026 14:33

Enable reactions to be compiled from AST.

038273e

Merge branch 'master' of ssh://github.com/neuronsimulator/nrn into rx…

1f78985

…d_ast

Merge.

c70a5a1

Compile reactions from ASTs.

67275cb

Expand pow calls.

cca353c

Fix rxdmath for when there are no NMODL Python bindings.

5e3d362

Update rxd testdata submodule.

e3e97b1

Merge branch 'master' into rxd_ast

76ec68c

Merge branch 'master' into rxd_ast

3f6b69a

adam added 2 commits August 11, 2026 15:22

Fix issue with _mult ids when Parameters are used

ef8ff40

Support Kineitic Block AST compilation.

Update coding-conventions.

2c3c692

adam added 2 commits August 11, 2026 16:47

Formatting.

d843e9f

Merge branch 'master' of ssh://github.com/neuronsimulator/nrn into rx…

ac0e6ff

…d_ast

Some minor fixes.

c9ac9c5

Merge branch 'master' into rxd_ast

f14c250

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