I have installed latest trunk build.It is CellProfiler_2.0.0_win64_r20120829204836.exe. It shows : error prepare while preparing for run :failed to get image set.
I installed CellProfiler_2.0_win64_r11710.exe yesterday. I think I input wrong regular expression.So now I decide to load a series of tif pictures.they are named as test00***.tif. *** are three numbers. There are 200 pictures at least. And many manipulations need to be repeated many times.For example, how do I filter 200 pictures in 20 times?[/quote]
You can load the images in LoadImages and group them according to stack if you organize the each stack into a separate sub-folder, point the default image folder to the root folder and specify “All” for “Analyze all sub-folders…” in LoadImages. Then you can extract metadata specifying the sub-folder name from the Path, check the “Group images by metadata” and select the metadata that corresponds to the sub-folder.
You can see an example of this approach in our Examples page; search for “Object Tracking and Metadata Management” on that page.
By any chance, can you upload the original TIF stack of images to this forum thread?
Unfortunately, 3-D segmentation is not one of CellProfiler’s capabilities. You could use CellProfiler to create a 2_D projection from a 3-D stack and detect cells from that 2-D image, but that would require that the cells be stationary in (x,y) and not overlap in the z-dimension.