Common code for the Lenstra lab.
Project description
Common Code
Code that both LiveCellAnalysis and smFISH (or others) use and doesn't get major changes goes here. This code should be a submodule in smFISH and LiveCellAnalysis.
Command line tools:
wimread
wimread imagefile
Displays information (pixel size, interval time etc.) about the image file.
Installation (Ubuntu)
python-javabridge is required, which requires java, for ubuntu:
sudo apt install openjdk-8-jdk-headless
Set java 8 as default java:
sudo update-alternatives --config java
Then this code can be installed as a package:
sudo pip install git+https://gitlab.rhpc.nki.nl/LenstraLab/tllab_common.git
or editable:
git clone https://gitlab.rhpc.nki.nl/LenstraLab/tllab_common.git
pip install -e tllab_common/ --user
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