From 5341789b9d208ff6cd3a1b9302f0f0f9b31728df Mon Sep 17 00:00:00 2001
From: Lars Kaiser <71793357+kaiserls@users.noreply.github.com>
Date: Sun, 21 Jul 2024 17:30:45 +0200
Subject: [PATCH] [CI] Update amici to include upstream CI bug fixes (#136)

* [CI] Update amici to include upstream CI bug fixes

* [Doc] Add amici version update to the changelog
---
 CHANGELOG.md   |  2 ++
 poetry.lock    | 10 +++++-----
 pyproject.toml |  2 +-
 3 files changed, 8 insertions(+), 6 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index c1c0c81..a91b4a7 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -23,6 +23,8 @@ All notable changes to this project will be documented in this file.
 
 ### Changed
 
+- Raised required amici version to 0.26.1
+
 ### Fixed
 
 - Seed numpy random number generator for reproducibility of pytest runs
diff --git a/poetry.lock b/poetry.lock
index 646918f..5cdce92 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -13,12 +13,12 @@ files = [
 
 [[package]]
 name = "amici"
-version = "0.25.1"
+version = "0.26.1"
 description = "Advanced multi-language Interface to CVODES and IDAS"
 optional = true
 python-versions = ">=3.10"
 files = [
-    {file = "amici-0.25.1.tar.gz", hash = "sha256:00a1b90a5abfc00fd9429a7690a5000d4966841345b6f0f88ffe11c604ebea02"},
+    {file = "amici-0.26.1.tar.gz", hash = "sha256:2dfc3e1a2941eb2f53eeef2175b00f9896223b987dbf8ae29f37e2cc8c3702dd"},
 ]
 
 [package.dependencies]
@@ -33,12 +33,12 @@ pandas = ">=2.0.2"
 pyarrow = "*"
 python-libsbml = "*"
 setuptools = ">=48"
-sympy = ">=1.9"
+sympy = ">=1.12.1"
 toposort = "*"
 
 [package.extras]
 examples = ["jupyter", "scipy"]
-petab = ["petab (>=0.2.9)"]
+petab = ["petab (>=0.4.0)"]
 pysb = ["pysb (>=1.13.1)"]
 test = ["antimony (!=2.14)", "antimony (>=2.13)", "coverage", "h5py", "pooch", "pytest", "pytest-cov", "pytest-rerunfailures", "scipy", "shyaml"]
 vis = ["matplotlib", "seaborn"]
@@ -4261,4 +4261,4 @@ sbml = ["amici"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10, <4.0"
-content-hash = "a4a0ca6e42ecbc8e4c231e45721a87d257b613dcc19be12cdb3a5a4fce1b8839"
+content-hash = "f7fa18a8249e018123a3d298cea26fd87653df5b075b466ffd1d5c7f25c93cf4"
diff --git a/pyproject.toml b/pyproject.toml
index 10355ef..a43d5e0 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -30,7 +30,7 @@ emcee = ">=3.1.4"
 jaxlib = ">=0.4.19"
 tqdm = ">=4.66.1"
 seedir = ">=0.4.2"
-amici = { version = "^0.25.1", optional = true }
+amici = { version = ">=0.26.1", optional = true }
 scikit-learn = "^1.3.1"
 
 [tool.poetry.extras]