[JAVA] How to use Bio-Formats on Ubuntu 20.04

How to use Bio-Formats.

  1. Download command line tools
wget https://downloads.openmicroscopy.org/bio-formats/6.5.1/artifacts/bftools.zip

Unzip it, for example, $ HOME / bin / bftools

Through Path


export PATH=$HOME/bin/bftools:$PATH
  1. Download ij.jar
wget http://wsr.imagej.net/distros/linux/ij153-linux64-java8.zip

Unzip and put ij.jar in $ HOME / bin / bftools

  1. Download sample data
wget https://downloads.openmicroscopy.org/images/OME-TIFF/2016-06/tubhiswt-2D.zip

When unzipped, there are the following two files

$ tree tubhiswt-2D
├── tubhiswt_C0.ome.tif
└── tubhiswt_C1.ome.tif
  1. Image display
showinf tubhiswt_C0.ome.tif


  1. Displaying images with ImageJ
ijview tubhiswt_C0.ome.tif


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