Merge branch 'precice:develop' into micro-dumux-surrogate

Author: IshaanDesai

.pre-commit-config.yaml

@@ -12,7 +12,7 @@ repos:
     - id: markdownlint-fix
       exclude: ^(.github/pull_request_template.md|changelog-entries)
 - repo: https://github.com/hhatto/autopep8
-  rev: v2.0.4
+  rev: v2.3.2
   hooks:
     - id: autopep8
       args: [ --in-place, --exit-code, --aggressive, --ignore=E402, --max-line-length=120 ]

changelog-entries/662.md

@@ -0,0 +1 @@
+- Updated the Micro Manager config files as per Micro Manager v0.7.0 [#662](https://github.com/precice/tutorials/pull/662)

changelog-entries/663.md

@@ -0,0 +1 @@
+- Enable parallel execution of the participant macro-dumux in the two-scale heat conduction tutorial [#663](https://github.com/precice/tutorials/pull/663)

changelog-entries/664.md

@@ -0,0 +1 @@
+- Fix negotiation of dt value in two-scale-heat-conduction/macro-dumux [#664](https://github.com/precice/tutorials/pull/664)

changelog-entries/665.md

@@ -0,0 +1 @@
+- Fix data writing for elements in parallel execution of macro-dumux in two-scale-heat-conduction [#665](https://github.com/precice/tutorials/pull/665)

changelog-entries/666.md

@@ -0,0 +1 @@
+- Fix subcycling and checkpointing in macro-dumux of two-scale-heat-conduction [#666](https://github.com/precice/tutorials/pull/666)

changelog-entries/668.md

@@ -0,0 +1 @@
+- Removed simulation time from precice-config.xml of two-scale heat conduction [#668](https://github.com/precice/tutorials/pull/668)

changelog-entries/676.md

@@ -0,0 +1 @@
+- Switched to adapter-based checkpointing in the macro-dumux participant of the two-scale heat conduction tutorial [#676](https://github.com/precice/tutorials/pull/676)

changelog-entries/680.md

@@ -0,0 +1 @@
+- Added the `PRECICE_TUTORIALS_NO_VENV` environment variable to skip the setup of a Python venv in the run.sh scripts of Python-related tutorials [#680](https://github.com/precice/tutorials/pull/680). Use as `set PRECICE_TUTORIALS_NO_VENV && ./run.sh`.

channel-transport-reaction/chemical-fenics/run.sh

@@ -4,9 +4,12 @@ set -e -u
 . ../../tools/log.sh
 exec > >(tee --append "$LOGFILE") 2>&1
 
-python3 -m venv --system-site-package .venv
-. .venv/bin/activate
-pip install -r requirements.txt && pip freeze > pip-installed-packages.log
+if [ ! -v PRECICE_TUTORIALS_NO_VENV ]
+then
+    python3 -m venv --system-site-package .venv
+    . .venv/bin/activate
+    pip install -r requirements.txt && pip freeze > pip-installed-packages.log
+fi
 
 python3 chemical-reaction-advection-diffusion.py