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@votti
Created November 1, 2019 15:17
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Working Cellprofiler 3.1.8 conda environment
# run: conda env create -f cp318_environment.yml
# run: conda env update -f cp318_environment.yml
# activate: conda activate cellprofiler318
name: cellprofiler318
# in order of priority: highest (top) to lowest (bottom)
channels:
- anaconda
- goodman # mysql-python for mac
- bioconda
- cyclus # java-jdk for windows
- conda-forge # libxml2 for windows
- daf
dependencies:
- appdirs
- boto3
- cython
- h5py
- ipywidgets
- java-jdk
- joblib
- jupyter
- libtiff
- libxml2
- libxslt
- lxml
- packaging
- pillow
- pip
- python=2
- pyzmq=15.3.0
- mahotas
- matplotlib!=2.1.0,>2.0.0
- mysqlclient
- numpy
- raven
- requests
- scikit-image>=0.13
- scikit-learn
- scipy
- sphinx
- tifffile
- wxpython=3.0.2.0
- pip:
- cellh5
- centrosome
- inflect
- prokaryote==2.4.0
- javabridge==1.0.15
- python-bioformats==1.4.0
- git+https://github.com/CellProfiler/CellProfiler.git@v3.1.8
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