Allow reading projects with image path that doesn't exist.

cylindra/components/tomogram/_cyl_tomo.py

@@ -190,6 +190,7 @@ def dummy(
 
     @property
     def is_dummy(self) -> bool:
+        """True if this tomogram object does not have a real image."""
         return self.metadata.get("is_dummy", False)
 
     def add_spline(

cylindra/project/_single.py

@@ -227,7 +227,6 @@ def _to_gui(
 
             @thread_worker.callback
             def _update_widget():
-                gui._reserved_layers.image.bounding_box.visible = not read_image
                 if len(tomogram.splines) > 0:
                     gui._update_splines_in_images()
                     with gui.macro.blocked():
@@ -400,13 +399,25 @@ def load_tomogram(
         from cylindra.components import CylTomogram
 
         if self.image is not None:
-            tomo = CylTomogram.imread(
-                path=self.image,
-                scale=self.scale,
-                tilt=self.missing_wedge.as_param(),
-                binsize=self.multiscales,
-                compute=compute,
-            )
+            if self.image.exists():
+                tomo = CylTomogram.imread(
+                    path=self.image,
+                    scale=self.scale,
+                    tilt=self.missing_wedge.as_param(),
+                    binsize=self.multiscales,
+                    compute=compute,
+                )
+            else:
+                warnings.warn(
+                    f"Cannot find image file {self.image}. Load other components only.",
+                    UserWarning,
+                    stacklevel=2,
+                )
+                tomo = CylTomogram.dummy(
+                    scale=self.scale,
+                    tilt=self.missing_wedge.as_param(),
+                    binsize=self.multiscales,
+                )
         else:
             tomo = CylTomogram.dummy(
                 scale=self.scale,

cylindra/project/_widgets.py

@@ -103,6 +103,8 @@ def _from_project(self, project: "CylindraProject", dir: Path):
             self.components._add_layer(layer, info.visible)
 
         # draw edge
+        if project.image is None or not project.image.exists():
+            return
         img = ip.lazy.imread(project.image)
         nz, ny, nx = img.shape
         for z in [0, nz]:

cylindra/widgets/main.py

@@ -656,6 +656,8 @@ def filter_reference_image(
     ):  # fmt: skip
         """Apply filter to enhance contrast of the reference image."""
         method = ImageFilter(method)
+        if self.tomogram.is_dummy:
+            return
         with utils.set_gpu():
             img = self._reserved_layers.image_data
             overlap = [min(s, 32) for s in img.shape]
@@ -2527,6 +2529,7 @@ def _send_tomogram_to_viewer(
             self._reserved_layers.update_image(imgb, bin_size, tr)
         if self._reserved_layers.highlight in viewer.layers:
             viewer.layers.remove(self._reserved_layers.highlight)
+        self._reserved_layers.image.bounding_box.visible = _is_lazy
 
         self.GeneralInfo._refer_tomogram(tomo)
 

cylindra/widgets/subwidgets/simulator.py

@@ -197,7 +197,9 @@ def _prep_radon(
             mole = main.mole_layers[layer_name].molecules
             simulator.add_molecules(mole, pipe.from_file(temp_path))
         tilt_series = simulator.simulate_tilt_series(degrees=degrees, shape=shape)
-        tilt_series = ip.asarray(tilt_series, axes=["degree", "y", "x"])
+        tilt_series = ip.asarray(
+            tilt_series, axes=["degree", "y", "x"], name="Simulated"
+        )
         return tilt_series.set_scale(y=scale, x=scale)
 
     def _get_proper_molecules_layers(self, *_):
@@ -277,7 +279,8 @@ def create_empty_image(
         tomo = CylTomogram.from_image(img, scale=scale, binsize=binsize)
         tomo.metadata["is_dummy"] = True
         main._macro_offset = len(main.macro)
-        return main._send_tomogram_to_viewer.with_args(tomo)
+        yield main._send_tomogram_to_viewer.with_args(tomo)
+        main._reserved_layers.image.bounding_box.visible = True
 
     @set_design(text=capitalize, location=CreateMenu)
     def create_straight_line(

cylindra/widgets/subwidgets/spline_control.py

@@ -209,6 +209,9 @@ def _load_projection(self, spl: "CylSpline"):
         # update plots in pyqtgraph, if properties exist
         parent.LocalProperties._plot_properties(spl)
 
+        if tomo.is_dummy:
+            return
+
         # calculate projection
         anc = spl.anchors
         if (npfs := spl.props.get_loc(H.npf, None)) is not None:
@@ -254,7 +257,7 @@ def _update_canvas(self, pos: int | None = None, num: int | None = None):
             pos = self.pos
 
         if not self._projections or num is None or pos is None:
-            return self._clear_all_layers
+            return self._clear_all_layers()
         if num >= len(tomo.splines):
             return