We just received an email from a collaborator who tried the tool. She tried to apply on TIFF images a model trained on PNG images. nnunet doesn't even complain, it just ignores every file because it is looking for PNGs. Along with #5, this is the kind of errors we really need to catch.
In the dataset.json file contained in the packaged models, the field file_ending specifies which extension nnunet is looking for. When we are copying input images in the temporary directory, we could easily check for the extension and apply conversions when necessary.
We just received an email from a collaborator who tried the tool. She tried to apply on TIFF images a model trained on PNG images. nnunet doesn't even complain, it just ignores every file because it is looking for PNGs. Along with #5, this is the kind of errors we really need to catch.
In the
dataset.jsonfile contained in the packaged models, the fieldfile_endingspecifies which extension nnunet is looking for. When we are copying input images in the temporary directory, we could easily check for the extension and apply conversions when necessary.