Tibor Sloboda slobodaapl
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bdunnette
/ bioformats-extract-tile.py
Last active
March 17, 2022 09:02
Example of extracting a tile from a BioFormats-readable file (e.g. Zeiss CZI) using python
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| # Requires both javabridge and python-bioformats: | |
| # pip install python-bioformats | |
| # On e.g. Ubuntu you may need to add JAVA_HOME to /etc/profile: | |
| # JAVA_HOME=/usr/lib/jvm/default-java | |
| # PATH=$PATH:$HOME/bin:$JAVA_HOME/bin | |
| # export JAVA_HOME | |
| # export JRE_HOME | |
| # export PATH |