Add integration test for PROTEUS (#149)

* Fix missing font issue

* Add integration test

* Install MORS, JANUS, SOCRATES

* Add socrates dependencies

* Download frostflow

* Download SOCRATES

* Pre-download all files

* Fix mors: command not found

* Fix mors: command not found

* Add sanity check

* Switch JANUS/MORS install order

* Try entire workflow

* Fix env var

* Download SPIDER

* Build SPIDER

* Set PETSC_DIR

* Try other PETSC_DIR

* Fix make command

* Avoid installing petsc/spider

* Fix skip

* Trigger workflow

* Add comment to tests

.github/workflows/tests.yaml

@@ -23,10 +23,15 @@ jobs:
       matrix:
         python-version: ['3.10']
 
+    env:
+      FWL_DATA: /home/runner/work/fwl_data
+      RAD_DIR: ./SOCRATES
+      SOCRATES: ./SOCRATES  # https://github.com/FormingWorlds/JANUS/issues/51
+
     steps:
       - uses: actions/checkout@v3
         with:
-          submodules: 'true'
+          submodules: 'false'
 
       - name: Set up Python ${{ matrix.python-version }}
         uses: actions/setup-python@v4
@@ -44,17 +49,57 @@ jobs:
         run: |
           python -m pip install -e .[develop]
 
+      - name: Install JANUS+MORS
+        run: |
+          python -m pip install git+https://github.com/FormingWorlds/MORS
+          python -m pip install git+https://github.com/FormingWorlds/JANUS
+
+      - name: Setup system for SOCRATES
+        run: |
+          sudo apt-get update
+          sudo apt-get install libnetcdff-dev netcdf-bin
+
+      - name: Get SOCRATES
+        uses: actions/checkout@v4
+        with:
+          repository: 'FormingWorlds/SOCRATES'
+          path: 'SOCRATES'
+
+      - uses: actions/cache@v3
+        id: cache-socrates
+        with:
+          path: |
+            SOCRATES/bin
+            SOCRATES/sbin
+            SOCRATES/set_rad_env
+          key: socrates-${{ hashFiles('SOCRATES/version') }}
+
+      - name: Build SOCRATES
+        if: steps.cache-socrates.outputs.cache-hit != 'true'
+        run: |
+          export LD_LIBRARY_PATH=""
+          cd SOCRATES
+          ./configure
+          ./build_code
+          cd ..
+
       - uses: actions/cache@v3
         id: cache-fwl-data
         with:
-          path: /home/runner/work/fwl_data
-          key: fwl-data-1
+          path: ${{ env.FWL_DATA }}
+          key: fwl-data-2
+
+      - name: Pre-download fwl data
+        if: steps.cache-fwl-data.cache-hit != 'true'
+        run: |
+          mors download all
+          janus download stellar
+          janus download spectral
+          janus download spectral -n Frostflow -b 48
 
       - name: Test with pytest
         run: |
           source PROTEUS.env
-          export FWL_DATA="/home/runner/work/fwl_data"
-          export RAD_DIR="./SOCRATES"
           coverage run -m pytest
 
       - name: Report coverage

src/proteus/utils/plot.py

@@ -302,7 +302,7 @@ def set_properties( self, nrows, ncols, width, height ):
         # Set main font properties
         font_d = {
             'size': 10.0,
-            'family': ['Arial','sans-serif']
+            'family': ['sans-serif']
             }
 
         # fonts  = fm.findSystemFonts(fontpaths=None, fontext='ttf')

tests/integration/test_proteus_start.py

@@ -0,0 +1,29 @@
+from __future__ import annotations
+
+import os
+from pathlib import Path
+
+import pytest
+from helpers import PROTEUS_ROOT
+
+from proteus import Proteus
+
+if os.getenv('CI'):
+    # https://github.com/FormingWorlds/PROTEUS/pull/149
+    pytest.skip(reason='No way of currently testing this on the CI.', allow_module_level=True)
+
+
+def test_dummy_run():
+    config_path = PROTEUS_ROOT / 'input' / 'dummy.toml'
+
+    runner = Proteus(config_path=config_path)
+
+    runner.config['log_level'] = 'WARNING'
+    runner.config['plot_iterfreq'] = 0
+    runner.config['iter_max'] = 0
+
+    runner.start()
+
+    output = Path(runner.directories['output'])
+
+    assert 'Completed' in (output / 'status').read_text()