Pull from develop - #172

Merged

luciansmith merged 74 commits into

build-win-qt-installerfrom

Aug 24, 2026

Commits on Jul 28, 2026

Fix potential race condition in CMake/GTest.
luciansmith
committed
9bf0605
Update version number.
luciansmith
committed
894aadd

Commits on Jul 30, 2026

The dependencies for CI/CD build are now downloaded from the dedicated antimony binaries in libroadrunner-deps repo
adelhpour
committed
e11d443
The dependencies for CI/CD build are now downloaded from the dedicated antimony binaries in libroadrunner-deps repo
adelhpour
committed
ec3a794
Merge branch 'develop' into update-ci-cd-workflow
adelhpour
authored
f4f9e6c
Revert "The dependencies for CI/CD build are now downloaded from the dedicated antimony binaries in libroadrunner-deps repo"
adelhpour
committed
2bbb4f7

Commits on Jul 31, 2026

Commits on Aug 1, 2026

Merge pull request #165 from sys-bio/supplement-api
luciansmith
authored
7a5e014

Commits on Aug 4, 2026

Add capabilities that the test suite revealed:
luciansmith
committed
8e41a02
Add species conversion factors.
luciansmith
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8ab0801
Add test files.
luciansmith
committed
9341625
add a debug line for CI/CD
adelhpour
committed
038a9a5
Merge branch 'develop' into update-ci-cd-workflow
adelhpour
authored
6ec718a
fix the issue with CI/CD unzipping the deps
adelhpour
committed
29f7354
fix mistakenly changed lines of CI/CD
adelhpour
committed
eb45fed
fix mistakenly changed lines of CI/CD
adelhpour
committed
64fa4cb
Add model conversion factor.
luciansmith
committed
908b8d5
Add test for correctly flattening function definitions.
luciansmith
committed
071c3fb
Handle SBML Level 1 'denominator' attribute on speciesRef.
luciansmith
committed
d42bc01
Update libsbml, which should fix functionDefinition bug.
luciansmith
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3362638
Add new test CI that roundtrips test suite models and checks results with roadrunner.
luciansmith
committed
501180d
Update main.yml
luciansmith
committed
6324b30
Merge pull request #166 from sys-bio/cover-test-suite-gaps
luciansmith
authored
b52def9
Test the roundtrip CI; fix bugs.
luciansmith
committed
a9ea7ec
Fix downloading test cases.
luciansmith
committed
ecdbcef
Find test cases.
luciansmith
committed
df78696
Fix rule: we can fail original and roundtripped if we get the same error both times.
luciansmith
committed
1ca00b1

Commits on Aug 5, 2026

Fix a harness issue and a real issue.
luciansmith
committed
1278252
No longer error out when a modifier species doesn't appear in a kinetic law.
luciansmith
committed
7e65a42
Don't error out on error categories, instead of string-matched errors.
luciansmith
committed
b51005d
Allow fast reactions to fail original, pass roundtrip.
luciansmith
committed
6c1cc8e
Fix comp lookup errors by giving roadrunner comp version of SBML.
luciansmith
committed
bf9f5f9
Better error diagnostics.
luciansmith
committed
74bb676
Fix parameter names for hierarchical models.
luciansmith
committed
075e264
Fix import of empty constraints.
luciansmith
committed
049c7a6
fix mistakenly changed lines of CI/CD
adelhpour
committed
9c09a4a
Merge branch 'develop' into update-ci-cd-workflow
adelhpour
authored
5cc8291
Fix messages.
luciansmith
committed
b7bad6b
Merge pull request #163 from sys-bio/update-ci-cd-workflow
adelhpour
authored
f02405b
Fix names for identical stoichiometry names on same reaction.
luciansmith
committed
0bdf9eb
Add missing functions to API, and then to createAntimonyLib.py
luciansmith
committed
944ab9c
Workaround for comp models in roadrunner.
luciansmith
committed
6f00ecc
Skip and warn for tests where Antimony renames a variable.
luciansmith
committed
d83690c
If 'fast' is present, don't worry about roundtripped version.
luciansmith
committed
312067b
Fix Antimony writing out hierarchical versions of files with conversion factors.
luciansmith
committed
254d859
Fix 'time' requests to convert to 'time_'.
luciansmith
committed
4069b0f

Commits on Aug 6, 2026

Commits on Aug 7, 2026

added build from source instructions to the README.md
adelhpour
committed
268b914

Commits on Aug 11, 2026

Add test for deleted rate rule with a new value.
luciansmith
committed
1c86219

Commits on Aug 14, 2026

Promote imported events with deleted bits.
luciansmith
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1520a6f
Add missing test files.
luciansmith
committed
8aec954
Allow 'sub1_t1' to substitute for 'sub1__t1'.
luciansmith
committed
bef53bc
When parts of reactions are deleted, promote and replace.
luciansmith
committed
0ac3f41
Fix init overrides when replacing multiple submodel elements at once.
luciansmith
committed
1acd20d
Allow booleans anywhere, including priorities.
luciansmith
committed
6c2f741
Add new test53 files.
luciansmith
committed
d3fe761
Move the SBML Test Suite tests into the main CI; run on macos14.
luciansmith
committed
ff62b8a
Merge pull request #170 from sys-bio/test-roundtrip-test-suite-v2
luciansmith
authored
05a3b8a
Update README, and remove more dead configure code.
luciansmith
committed
40df40e

Commits on Aug 15, 2026

Add newer funding.
luciansmith
committed
bed2e3c
More fiddly updates.
luciansmith
committed
a5454b5
Merge pull request #169 from sys-bio/build-instructions
adelhpour
authored
3baebaf

Commits on Aug 22, 2026

Commits on Aug 24, 2026