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budach / pysster

pysster: Learning Sequence And Structure Motifs In Biological Sequences Using Convolutional Neural Networks
MIT License
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Issues with Tensorflow 2 #9

Open mari-ga opened 3 months ago

mari-ga commented 3 months ago

Hi, First of all thank you very much for this tool. Currently I'm having problems with Tensorflow, since no versions <2.0 are available. I see that you intended to add support for Tensorflow 2.x. TensorFlow 2 has recently been released and we plan switching to it and its integrated tf.keras in the future. Any update about it?

Thanks a lot in advance!

budach commented 3 months ago

Hi,

I myself never got it to work properly and I also left academia a long time ago, so I am not able to help anymore, sorry. However, I am pretty sure that @mhorlacher (also TUM/ICB btw) continued to work with my package and might have done the update to Tensorflow 2. Maybe he can help and share code in this case.

mhorlacher commented 3 months ago

Hi @mari-ga - could you clarify what you mean by "no versions <2.0 available"? Older versions of TF are available through conda-forge, e.g. 1.14.0 (which I believe was the dev version for pysster). We've recently used pysster in this project and AFAIK had no issues. @giulic3 may still have a conda environment which she could share with you.

mari-ga commented 3 months ago

Hi @mhorlacher thank you very much for the guide! I'll check it :). If you guys still have the conda env I would be very grateful :)