//script parameters
#@ File(label="Directory", style="directory") dir
#@ String(label="Method", choices={"Retrospective multi-modal", "Prospective"}, style="radioButtonVertical") method
#@ String (label=" ", value="![](\"https://live.staticflickr.com/65535/48557333566_d2a51be746_o.png\")
", visibility=MESSAGE, persist=false) logo
#@ String (label=" ", value="Neuromolecular Biology Laboratory
ERI BIOTECMED - Universitat de València (Spain)", visibility=MESSAGE, persist=false) message
original=File.getName(dir);
list=getFileList(dir);
Array.sort(list);
outputFlatField=File.getParent(dir)+File.separator+original+"_flat-field";
outputCorrected=File.getParent(dir)+File.separator+original+"_corrected";
//check if the folder contains tif files
tifFiles=0;
for (i=0; i