How to use Bio-Formats on Ubuntu 20.04
How to use Bio-Formats.
- 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
.bash_profile
(abridgement)
export PATH=$HOME/bin/bftools:$PATH
- Download ij.jar
wget http://wsr.imagej.net/distros/linux/ij153-linux64-java8.zip
Unzip and put ij.jar in $ HOME / bin / bftools
- 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-2D
├── tubhiswt_C0.ome.tif
└── tubhiswt_C1.ome.tif
- Image display
showinf tubhiswt_C0.ome.tif
- Displaying images with ImageJ
ijview tubhiswt_C0.ome.tif
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