script/imaging/shifts.py

@@ -36,10 +36,15 @@ def load_corr_stack(title="Corr", show=False):
         file_list.append("{images}/TestObjAligner_corr/i210517_0" + str(index) + "#001.tif")
     return load_stack(title, file_list, show)
 
+def instantiate_dynamic_class(name):
+    if get_context().getPluginManager().getDynamicClass(name) is None:
+        get_context().getPluginManager().loadInitializePlugin(name + ".java")
+    return get_context().getClassByName(name).newInstance()
+
+
 def complex_edge_filtering(imp, complex=True, g_sigma=3.0, g_resolution=1e-4, show=False, java_code=False):
     if java_code:
-        get_context().getPluginManager().loadInitializePlugin("Align_ComplexEdgeFiltering.java")
-        complex_edge_filter = get_context().getClassByName("Align_ComplexEdgeFiltering").newInstance()
+        complex_edge_filter = instantiate_dynamic_class("Align_ComplexEdgeFiltering")
         complex_edge_filter.setup(str(g_sigma)+","+str(complex)+","+str(show), imp)   #Gaussian blur radius, Complex (True) or Real (False), show dialog = False
         complex_edge_filter.run(imp.getProcessor())
         return complex_edge_filter.output
@@ -151,8 +156,7 @@ class TranslationFilter(ExtendedPlugInFilter):
 def translate(stack, shifts, show=False, java_code=False):
     WindowManager.setTempCurrentImage(stack)
     if java_code:
-        get_context().getPluginManager().loadInitializePlugin("Align_TranslationFilter.java")
-        translation_filter = get_context().getClassByName("Align_TranslationFilter").newInstance()
+        translation_filter = instantiate_dynamic_class("Align_TranslationFilter")
         translation_filter.imp = imp
         translation_filter.shifts = shifts
         pfr = PlugInFilterRunner(translation_filter, "", "" )
@@ -170,13 +174,11 @@ def translate(stack, shifts, show=False, java_code=False):
 
 
 def load_shifts(filename):
-    get_context().getPluginManager().loadInitializePlugin("ShiftsIO.java")
-    sio = get_context().getClassByName("ShiftsIO").newInstance()
+    sio = instantiate_dynamic_class("ShiftsIO")
     return sio.load(expand_path(filename), "directshifts")
 
 def save_shifts(filename, shifts):
-    get_context().getPluginManager().loadInitializePlugin("ShiftsIO.java")
-    sio = get_context().getClassByName("ShiftsIO").newInstance()
+    sio = instantiate_dynamic_class("ShiftsIO")
     sio.save(expand_path(filename), shifts, "directshifts")
 
 
@@ -588,8 +590,7 @@ def calculate_shifts(imp_r, imp_i, roi, upscale_factor=100, reference_slide=1, j
     if roi is None or roi.bounds.minX <0 or roi.bounds.minY<0 or roi.bounds.maxX>=imp_r.width or roi.bounds.maxY>=imp_r.height:
         raise Exception("Invalid roi: " + str(roi))
     if java_code:
-        get_context().getPluginManager().loadInitializePlugin("Align_ComputeShifts.java")
-        compute_shifts_filter = get_context().getClassByName("Align_ComputeShifts").newInstance()
+        compute_shifts_filter = instantiate_dynamic_class("Align_ComputeShifts")
         compute_shifts_filter.setup(upscale_factor, False, imp_r, imp_i, 1, roi)
         compute_shifts_filter.run(None)
         return compute_shifts_filter.shifts