Getting an ')' expected error when trying to run a stitching plugin

Posted by jblonigan on May 10, 2016; 5:26pm
URL: http://imagej.273.s1.nabble.com/Getting-an-expected-error-when-trying-to-run-a-stitching-plugin-tp5016389.html

Hi All,

I am coming across an issue when trying to run a plugin from my macro, when I run the straight recorded version which is:

run("Grid/Collection stitching", "type=[Positions from file] order=[Defined by TileConfiguration] directory=C:\\Users\\JBlon\\Desktop\\Stanford\\Images\\Stitch_Test\\XY02 layout_file=ch1_imj.txt fusion_method=[Linear Blending] regression_threshold=0.50 max/avg_displacement_threshold=2.50 absolute_displacement_threshold=3.50 computation_parameters=[Save memory (but be slower)] image_output=[Fuse and display]");

It runs perfectly, however when I replace the directory parameters with something that I can loop through and customize for my macro it gives me that error. Here is what I am trying to get to run:

run("Grid/Collection stitching", "type=[Positions from file] order=[Defined by TileConfiguration] directory="Root_Folder+"\\"+Analysis_Folder+"\\XY0"+i+"layout_file=ch1_imj.txt fusion_method=[Linear Blending] regression_threshold=0.50 max/avg_displacement_threshold=2.50 absolute_displacement_threshold=3.50 computation_parameters=[Save memory (but be slower)] image_output=[Fuse and display]");

where:

Root_Folder = "C:\\Users\\JBlon\\Desktop\\Stanford\\Images"
Analysis_Folder = "Stitch_Test"
i=2

Does anyone see what I am doing wrong here? Thanks for the help