InstaDeep Enzyme Classification Challenge
Job Interview
Can you predict the class of an enzyme using only its amino acid sequence?
346 data scientists enrolled, 70 on the leaderboard
BiologyClassificationStructured
17 November 2020—21 February 2021
97 days
Reasonable epoch execution time
published 6 Feb 2021, 06:49

My model is taking forever (about 45-60 min) to complete an epoch (which I think is due to the long sequences) for a daily simple (baseline) network. I haven't even added "bells and whistles". So I want to find out what an ideal epoch execution time is. I am afraid I cannot even train larger and better networks with this execution time

With 5 epochs, I start at 30.0% accuracy and end at 29.9% (basically, no learning).

Is my architecture wrong? Am I calculating accuracy wrongly? I will appreciate any help.

Thanks.

What model architecture you are using? Try using

1 embed -> 1 LSTM -> 2 Linear (relu and softmax)

Try TPU in colab. In GPU, the running time is very

Thanks for your assistance. I will try that.

However, your responses seem to be incomplete. Your initial reply said "try using..." this one says the running time is very..." both incomplete

I think you should check that. Thanks

Sorry I don't know why the last word got cutoff. I meant that running time in GPU is very high. Try using colab tpu.