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Published 20 hours ago • verified publisher icon eleozzr

Outdated dependencies

Open kleurless opened this issue 4 years ago • 3 comments

Hi!

I was wondering if you are working on/thinking about upgrading the package to dependencies with Python 3.7 and higher versions of scanpy? Right now, your package is not appealing to use as it is not up-to-date with recent releases of packages (scanpy, tensorflow, anndata and python itself).

I could make a new conda environment that meets the dependencies that you state, but then I won't be able to use new functions for downstream-analyses in scanpy so that won't solve my issue.

kleurless avatar Jun 29 '20 15:06 kleurless

Thank you for your suggestion. I am working on it and will release the updated package as soon as possible.

eleozzr avatar Jul 07 '20 11:07 eleozzr

Hi!

I was wondering if you are working on/thinking about upgrading the package to dependencies with Python 3.7 and higher versions of scanpy? Right now, your package is not appealing to use as it is not up-to-date with recent releases of packages (scanpy, tensorflow, anndata and python itself).

I could make a new conda environment that meets the dependencies that you state, but then I won't be able to use new functions for downstream-analyses in scanpy so that won't solve my issue.

Hi kleurless,

I have already updated our desc algorithm.

  1. For tensorflow 1*, we released desc(2.0.3). Please see our jupyter notebook example desc_2.0.3_paul.ipynb
  2. For tensorflow 2*, we released desc(2.1.1). Please see our jupyter notebook example desc_2.1.1_paul.ipynb

Hope this helps. Thanks.

eleozzr avatar Jul 25 '20 07:07 eleozzr

Hi! I was wondering if you are working on/thinking about upgrading the package to dependencies with Python 3.7 and higher versions of scanpy? Right now, your package is not appealing to use as it is not up-to-date with recent releases of packages (scanpy, tensorflow, anndata and python itself). I could make a new conda environment that meets the dependencies that you state, but then I won't be able to use new functions for downstream-analyses in scanpy so that won't solve my issue.

Hi kleurless,

I have already updated our desc algorithm.

  1. For tensorflow 1*, we released desc(2.0.3). Please see our jupyter notebook example desc_2.0.3_paul.ipynb
  2. For tensorflow 2*, we released desc(2.1.1). Please see our jupyter notebook example desc_2.1.1_paul.ipynb

Hope this helps. Thanks.

Hi @eleozzr, Could you show me a way to install desc_2.1.1? Thanks! Zhang

zhanglab2008 avatar Oct 27 '20 20:10 zhanglab2008