I’m using FIJI on an ubuntu machine running java version 1.8.0_131. I am trying to stitch some tiles using the Grid/Collection stitching plugin. I have about 13588 tiles each of about 1000x1000 resolution. The total size of all tiles reaches 1.3 GB. I’m using Positions from file option of the plugin using a TileConfiguration.txt file that I have with all the respective approximate coordinates. I tried the ‘slower but less RAM’ option along with ‘use virtual input images’ and I still get out of memory! My machine has 8 GB of RAM and I’ve also tried assigning ImageJ a dedicated space of 7 GB which still doesn’t work. I also tried using a machine with 32 GB of RAM and a dedicated space of 30 GB for ImageJ with no luck.
Any help towards solving this is very much appreciated.