interact_spatial_scatter notworking

[solivehong]

hello
stereopy using interact_spatial_scatter cannot save or export lasso area

version = 1.4.1

---------------------------------------------------------------------------
Exception                                 Traceback (most recent call last)
Cell In[5], line 1
----> 1 ins.export_high_res_area(
      2     data_path,
      3     './SS200000135TL_D1.tissue.high_res.gef',
      4     # drop=True
      5 )

File ~/project/AS_human/porject_envs/st/lib/python3.8/site-packages/stereo/plots/interact_plot/poly_selection.py:281, in PolySelection.export_high_res_area(self, origin_file_path, output_path, drop)
    279 make_dirs(output_path)
    280 if self.data.file_format == 'gef':
--> 281     coors = self.get_selected_area_coors(drop)
    282     # print('coors length: %s' % len(coors))
    283     if not coors or len(coors) == 0:

File ~/project/AS_human/porject_envs/st/lib/python3.8/site-packages/stereo/plots/interact_plot/poly_selection.py:138, in PolySelection.get_selected_area_coors(self, drop)
    137 def get_selected_area_coors(self, drop=False) -> list:
--> 138     selected_exp_data = self.get_selected_areas(drop)
    139     if selected_exp_data is not None:
    140         return selected_exp_data.position.tolist()

File ~/project/AS_human/porject_envs/st/lib/python3.8/site-packages/stereo/plots/interact_plot/poly_selection.py:150, in PolySelection.get_selected_areas(self, drop)
    144 """
    145 get selected area exp boundary coords, list contains each x,y
    146 Returns:
    147 
    148 """
    149 if len(self.list_poly_selection_coors) == 0:
--> 150     raise Exception('Please select the data area in the picture first!')
    152 print("processing selected {} area".format(len(self.list_poly_selection_coors)))
    153 # list_poly_selection_exp_coors = []
    154 # data_set = set()

Exception: Please select the data area in the picture first!

[tanliwei-coder]

Did you manupulate according to above instructions strictly?

[solivehong]

Did you manupulate according to above instructions strictly?

yes i do

[solivehong]

Did you manupulate according to above instructions strictly?

yes i do

but i did not shown
The selected areas have been exported

[zifeng1990]

I have the x and y coordinates, but when I click 'Add,' it is not working either.

/

[wanruiwen-genomics-cn]

Dear @solivehong,

Thank you for reporting this issue!

Short answer: The export_high_res_area method in PolySelection fails because it requires the user to manually click the "add" button to register selected areas before exporting, but this workflow is not intuitive and leads to the list_poly_selection_coors list being empty when users go directly to export.

---

Assessment

• Type: bug
• Severity: medium
• Affected module: stereo/plots/interact_plot/poly_selection.py

What Is Happening

When using interact_spatial_scatter(poly_select=True), the returned PolySelection object provides two buttons: "add" and "export". The "export" button populates self.selected_exp_data directly, but export_high_res_area() calls get_selected_area_coors() which internally calls get_selected_areas(). This method checks self.list_poly_selection_coors — a list that is only populated when the user clicks the "add" button. If the user selects an area and clicks "export" without first clicking "add", list_poly_selection_coors remains empty and the exception Please select the data area in the picture first! is raised.

In the non-poly-select mode (InteractiveScatter), export_high_res_area() uses self.selected_exp_data directly (set by the export button callback), which works correctly. But in PolySelection, there is a disconnect between the export button callback and the export_high_res_area() method.

Is This Expected?

No. The user should be able to select an area and export it without encountering this error. The "add" + "export" two-step workflow is not clearly communicated, and export_high_res_area should be able to use already-exported data stored in self.selected_exp_data.

Recommended Workflow

Step 1 (Workaround): Before calling export_high_res_area(), make sure to click the "add" button after selecting each area on the plot. This registers the selection coordinates into list_poly_selection_coors.

Step 2 (Workaround): Then click the "export" button or call export_high_res_area() directly.

Notes

• A fix is being prepared that will make export_high_res_area and get_selected_areas fall back to self.selected_exp_data when list_poly_selection_coors is empty but data has already been exported via the "export" button.
• The fix also improves the error message to be more descriptive about the required workflow.

Maintainer Note

Root cause: PolySelection.get_selected_areas() only checks self.list_poly_selection_coors and raises immediately if empty, ignoring the fact that self.selected_exp_data may already contain valid exported data from the "export" button callback. The fix should modify export_high_res_area to use self.selected_exp_data as a fallback when list_poly_selection_coors is empty, consistent with how InteractiveScatter.export_high_res_area works.

Please let us know if you have further questions!

Best regards,
Stereopy Maintainer

[wanruiwen-genomics-cn]

A fix has been submitted: #440

This PR addresses the root cause described above by adding a fallback mechanism so that export_high_res_area works when the user has clicked the "export" button without first clicking "add". Please review when convenient.