I have a Pipeline that normally works fine, but has problems with one specific image in the “IdentifyObjectsInGrid” module (see below). The DefineGrid Display looks perfect (see attached file). I even tried to fill the empty spots to see if the problem is due to the empty spots, but that did not work either.
Any Idea what to change in order to let it work?
There was a problem running the analysis module IdentifyObjectsInGrid which is number 08. Error using ==> IdentifyObjectsInGrid at 168
Image processing was canceled in the IdentifyObjectsInGrid module because the grid you have designed is not working, please check the pipeline.
IdentifyObjectsInGrid in /Applications/CellProfiler/CompiledCP/CellProfiler_mcr/Modules/IdentifyObjectsInGrid.m (168)
AnalyzeImagesButton_Callback in /Applications/CellProfiler/CompiledCP/CellProfiler_mcr/CellProfiler/CellProfiler.m (9409)
gui_mainfcn in /Applications/CellProfiler/CompiledCP/CellProfiler_mcr/CellProfiler/CellProfiler.m (11138)
CellProfiler in /Applications/CellProfiler/CompiledCP/CellProfiler_mcr/CellProfiler/CellProfiler.m (55)
Module #8: IdentifyObjectsInGrid revision - 2
What did you call the grid you defined? GridBlue
What do you want to call the objects identified by this module? NaturalSpots
Would you like the objects to be rectangles that fill the entire grid, circles within the grid at forced locations, circles within the grid at their natural locations, or objects that retain their natural shape (these last two options are based on objects you have already identified in a previous module)? Natural Shape
For NATURAL SHAPE, CIRCLE NATURAL LOCATION, or any CIRCLE option with an automatically calculated diameter (see next question), what did you call the objects that you previously identified? Prespots
For CIRCLE options, enter the diameter of each object in pixels or type Automatic to automatically calculate the diameter based on the average diameter of objects that you previously identified Automatic
What do you want to call the outlines of the identified objects (optional)? NaturalOutlines
If the grid fails, would you like to use a previous grid that worked? Any Previous