tests: add basic test for lme4 (#55)

.gitignore

@@ -106,3 +106,4 @@ _version_save.py
 
 docs/*.bib.bak
 .idea
+build-recipes/ShapeOut2Launcher.spec

shapeout2/gui/compute/comp_lme4.py

@@ -65,14 +65,24 @@ def model(self):
             return "glmer+loglink"
 
     @QtCore.pyqtSlot()
-    def on_lme4(self):
-        """Run lme4 analysis"""
+    def on_lme4(self, ret_dlg=False):
+        """Run lme4 analysis
+
+        Parameters
+        ----------
+        ret_dlg: bool
+            If set to True, then the dialog is returned without
+            `_exec`uting it (used for testing).
+        """
         rlme4 = lme4.Rlme4(model=self.model, feature=self.feature)
         for wds in self.datasets:
             wds.add_to_rlme4(self.pipeline, rlme4)
         result = rlme4.fit()
         dlg = Rlme4ResultsDialog(self, result)
-        dlg.exec_()
+        if ret_dlg:
+            return dlg
+        else:
+            dlg.exec_()
 
     @QtCore.pyqtSlot()
     def on_close(self):

tests/test_gui_lme4.py

@@ -0,0 +1,55 @@
+"""Test lme4 functionality"""
+import pathlib
+
+from shapeout2.gui.main import ShapeOut2
+from shapeout2 import session
+from shapeout2.gui.compute.comp_lme4 import ComputeSignificance
+import pytest
+
+
+data_path = pathlib.Path(__file__).parent / "data"
+
+
+@pytest.fixture(autouse=True)
+def run_around_tests():
+    # Code that will run before your test, for example:
+    session.clear_session()
+    # A test function will be run at this point
+    yield
+    # Code that will run after your test, for example:
+    session.clear_session()
+
+
+def test_lme4_with_dcor_session(qtbot):
+    """
+    Open a session with DCOR data and perform lme4 analysis from
+    dclab docs at
+    https://dclab.readthedocs.io/en/stable/sec_av_lme4.html
+    """
+    mw = ShapeOut2()
+    qtbot.addWidget(mw)
+    mw.on_action_open(data_path / "version_2_5_0_dcor_lme4.so2")
+
+    # create dialog manually
+    dlg = ComputeSignificance(mw, pipeline=mw.pipeline)
+
+    # set the variables
+    # treatment rep 1
+    dlg.datasets[0].comboBox_group.setCurrentIndex(1)
+    # treatment rep 2
+    dlg.datasets[1].comboBox_group.setCurrentIndex(1)
+    dlg.datasets[0].spinBox_repeat.setValue(2)
+    # control rep 1
+    pass
+    # control rep 2
+    dlg.datasets[3].spinBox_repeat.setValue(2)
+    # control rep 3
+    dlg.datasets[4].spinBox_repeat.setValue(3)
+
+    # set the feature
+    feat_id = dlg.comboBox_feat.findData("deform")
+    dlg.comboBox_feat.setCurrentIndex(feat_id)
+
+    dlgr = dlg.on_lme4(ret_dlg=True)
+
+    assert dlgr.lineEdit_pvalue.text() == "0.012969"