Get the CI to work

Author: IshaanDesai

.github/workflows/test_pyfans.yaml

@@ -23,7 +23,7 @@ jobs:
     - name: Install dependencies
       run: |
         apt update
-        apt install -y cmake make g++ python3 python3-numpy python3-pip wget
+        apt install -y cmake make g++ wget python3-dev python3-venv
 
     - name: Install preCICE
       run: |
@@ -32,6 +32,8 @@ jobs:
 
     - name: Install the Micro Manager
       run: |
+        python3 -m venv .venv
+        . .venv/bin/activate
         pip install micro-manager-precice
 
     - name: Configure
@@ -42,5 +44,6 @@ jobs:
 
     - name: Run a dummy macro-micro coupling test
       run: |
+        . .venv/bin/activate
         cd test/test_pyfans
-        python3 macro-cube.py & micro-manager-precice micro-manager.config.json
+        python3 macro-cube.py & micro-manager-precice micro-manager-config.json

test/test_pyfans/macro-cube.py

@@ -58,7 +58,7 @@ def main():
         participant.advance(dt)
         dt = participant.get_max_time_step_size()
 
-        participant.finalize()
+    participant.finalize()
 
 
 if __name__ == "__main__":

test/test_pyfans/precice-config.xml

@@ -48,7 +48,7 @@
     </participant>
 
     <participant name="Micro-Manager">
-      <receive-mesh name="cube" from="macro-cube" direct-access="true" safety-factor="0.0"/>
+      <receive-mesh name="cube" from="macro-cube" api-access="true" safety-factor="0.0"/>
       <read-data name="strains1to3" mesh="cube"/>
       <read-data name="strains4to6" mesh="cube"/>
       <write-data name="stresses1to3" mesh="cube"/>
@@ -77,8 +77,8 @@
       <exchange data="cmat5" mesh="cube" from="Micro-Manager" to="macro-cube"/>
       <exchange data="cmat6" mesh="cube" from="Micro-Manager" to="macro-cube"/>
       <exchange data="cmat7" mesh="cube" from="Micro-Manager" to="macro-cube"/>
-      <exchange data="strains1to3" mesh="cube" from="macro-cube" to="Micro-Manager" initialize="yes"/>
-      <exchange data="strains4to6" mesh="cube" from="macro-cube" to="Micro-Manager" initialize="yes"/>
+      <exchange data="strains1to3" mesh="cube" from="macro-cube" to="Micro-Manager"/>
+      <exchange data="strains4to6" mesh="cube" from="macro-cube" to="Micro-Manager"/>
     </coupling-scheme:serial-explicit>
 
 </precice-configuration>