[INSTALLATION HELP]

[ckluong]

Please try these things before posting an installation issue:

1. Create a fresh new anaconda or virtual environment.

2. If you're having difficulties with caiman installation try installing a specific version, for example: conda install -c conda-forge caiman==1.8.5

3. If you want to use caiman features, caiman must but installed in the same environment as mesmerize.

4. If you want to use certain features like kshape clustering or cross-correlation, tslearn must be installed in the same environment as mesmerize.

Otherwise use this template:

System information

1. OS (MacOS Monterey 12.4)
2. CPU (2.6 GHz 6-Core Intel Core i7)
3. RAM 16GB 2667 MHz DDR4
4. SSD

Copy & paste the entire output of the terminal while you were trying to install when the issue came up: I have tried conda install -c conda-forge caiman==1.8.5 as well and it infinitely solved and never ended. I tried the mamba method and got this output.

(mesmerize) christopherluong@Christophers-Mac CaImAn % mamba env create -f environment.yml -n caiman

conda-forge/osx-64       Using cache
conda-forge/noarch       Using cache
pkgs/main/osx-64         [====================] (00m:00s) No change
pkgs/main/noarch         [====================] (00m:00s) No change
pkgs/r/osx-64            [====================] (00m:00s) No change
pkgs/r/noarch            [====================] (00m:00s) No change

Looking for: ["python[version='>=3.10']", 'bokeh', 'coverage', 'cython', 'future', 'h5py', 'holoviews', 'ipykernel', 'ipython', 'ipyparallel', 'jupyter', 'matplotlib', 'mypy', 'nose', 'numpy', 'numpydoc', 'opencv', 'peakutils', 'pims', 'psutil', 'pynwb', 'pyqtgraph', "scikit-image[version='>=0.19.0']", 'scikit-learn', 'scipy', "tensorflow[version='>=2.4.0']", 'tifffile', 'tk', 'tqdm', 'yapf', 'z5py']

Encountered problems while solving.
Problem: nothing provides __osx >=10.10 needed by grpcio-1.39.0-py37hac9a2c0_0```

**Installation method**
1. Are you using anaconda, python virtual environments, or something else?
  -> conda version 4.12.0

2. If you're installing mesmerize through pip, what version of pip is installed in the environment?
-> pip version 21.0.1

3. Are you trying to install in developer mode from the repo? No

4. What is the python version in the environment you're trying to install `mesmerize` in? 
-> python version 3.8.8

5. Information if you're using some other installation method.

[ckluong]

I think solved by using mamba install -c conda-forge caiman.

I then got an error running mesmerize, but it was solved by downgrading pandas to 1.1.0

I now get:

(mesmerize) christopherluong@Christophers-Mac ~ % mesmerize /opt/anaconda3/envs/mesmerize/lib/python3.6/site-packages/sklearn/utils/deprecation.py:143: FutureWarning: The sklearn.cluster.kmeans module is deprecated in version 0.22 and will be removed in version 0.24. The corresponding classes / functions should instead be imported from sklearn.cluster. Anything that cannot be imported from sklearn.cluster is now part of the private API. warnings.warn(message, FutureWarning)

Is this ok? Also how sensitive is this to updating python to say 3.9?

[kushalkolar]

that's just a deprecation warning, I wouldn't update the python version if you've got it working in that env.