Metadata-Version: 2.1
Name: tllab_common
Version: 2024.3.4
Summary: Common code for the Lenstra lab.
Home-page: https://github.com/Lenstralab/tllab_common
License: GPLv3
Keywords: burst,transcription
Author: Lenstra lab NKI
Author-email: t.lenstra@nki.nl
Requires-Python: >=3.10,<4.0
Classifier: License :: Other/Proprietary License
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.10
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Provides-Extra: bioformats
Provides-Extra: test
Provides-Extra: transforms
Requires-Dist: bidict
Requires-Dist: colorcet
Requires-Dist: czifile
Requires-Dist: dill
Requires-Dist: ipython
Requires-Dist: numpy
Requires-Dist: pandas
Requires-Dist: psutil
Requires-Dist: pytest-xdist ; extra == "test"
Requires-Dist: regex
Requires-Dist: roifile
Requires-Dist: ruamel.yaml (>=0.17,<0.18)
Requires-Dist: scipy
Requires-Dist: tifffile
Requires-Dist: tiffwrite
Requires-Dist: tqdm
Requires-Dist: untangle
Project-URL: Repository, https://github.com/Lenstralab/tllab_common
Description-Content-Type: text/markdown

# 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:

    pip install tllab_common

or editable:

    git clone git@github.com:Lenstralab/tllab_common.git
    pip install -e tllab_common/ --user
