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Update AMICI to v0.29.0 #412

Merged
merged 1 commit into from
Nov 28, 2024
Merged

Update AMICI to v0.29.0 #412

merged 1 commit into from
Nov 28, 2024

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dweindl
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@dweindl dweindl commented Nov 28, 2024 

git subrepo clone (merge) --branch=v0.29.0 --force git@github.com:AMICI-dev/AMICI.git deps/AMICI

subrepo:
  subdir:   "deps/AMICI"
  merged:   "d2fbf917"
upstream:
  origin:   "git@github.com:AMICI-dev/AMICI.git"
  branch:   "v0.29.0"
  commit:   "d2fbf917"
git-subrepo:
  version:  "0.4.8"
  origin:   "https://github.com/ingydotnet/git-subrepo"
  commit:   "3a53c20"

@dweindl
Update AMICI to v0.29.0
9e2a53c 
```
git subrepo clone (merge) --branch=v0.29.0 --force git@github.com:AMICI-dev/AMICI.git deps/AMICI

subrepo:
  subdir:   "deps/AMICI"
  merged:   "d2fbf917"
upstream:
  origin:   "git@github.com:AMICI-dev/AMICI.git"
  branch:   "v0.29.0"
  commit:   "d2fbf917"
git-subrepo:
  version:  "0.4.8"
  origin:   "https://github.com/ingydotnet/git-subrepo"
  commit:   "3a53c20"
```
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Quality Gate Passed Quality Gate passed

Issues
0 New issues
0 Accepted issues

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

See analysis details on SonarQube Cloud

@dweindl dweindl merged commit f5dbade into develop Nov 28, 2024
10 checks passed
@dweindl dweindl deleted the update_amici branch November 28, 2024 12:36
@dweindl dweindl mentioned this pull request Nov 28, 2024
Merged
dweindl added a commit that referenced this pull request Nov 28, 2024
@dweindl
Release 0.5.0 / Merge pull request #413 from ICB-DCM/develop
ec0126f 
## What's Changed

### Features

* Updated AMICI to v0.29.0 which comes with many new features and bug fixes (by @dweindl in #412)
* Added support for support for forward sensitivities (by @dweindl in #393)
* Use amici default options in generated HDF5 input files (by @dweindl in #392, #406)
* Set python package version via setuptools_scm (by @dweindl in #395)
* PEtab import: option to ignore initialization prior (by @dweindl in #402)
* Added scaffold for objective function / gradient evaluation with JSON I/O (by @dweindl in #400)

### Fixes

* Fixed data race in aggregateLikelihood (by @dweindl in #411)
* PEtab pipeline: 
  * Fixed potentially incorrect initial state from condition table (by @dweindl in #408)
  * Fail on problems using priors (they aren't supported and never have been) (by @dweindl in #384)
  * Only compute sensitivities with respect to optimized parameters (by @dweindl in #394)
  * HDF5 generation: Don't write obsolete sens_ind (by @dweindl in #407)
* Reduced clang warnings (by @dweindl in #397)


**Full Changelog**: v0.4.10...v0.5.0
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@dweindl