Answers.Body: <p>You would have to get <a href="https://developer.nvidia.com/how-to-cuda-python" rel="nofollow noreferrer">CUDA Python</a> set up on your system and likely modify ipyrad to actually use it (for example, by incorporating <a href="http://numba.pydata.org/" rel="nofollow noreferrer">numba</a>). So while this is possible, it will require significant effort on your part. In general, there are very few bioinformatics tools that support GPUs.</p>
  
Answers.ContentLicense: CC BY-SA 3.0
Answers.CreationDate: 2018-01-16T15:46:19.960Z
Answers.LastActivityDate: 2018-01-16T15:46:19.960Z
Answers.UserDisplayName: Devon Ryan
Body: <p>I want to use ipyrad on a new Ubuntu machine that has an NVidia Quadro K2000 card with 384 cores. One <a href="http://ipyrad.readthedocs.io/HPC_script.html" rel="nofollow noreferrer">can</a> configure ipyrad to run on a linux cluster.   Do I have any options to get ipyrad to access these cores?  </p>
  
  <p>I'm assuming that I will be able to install cuda drivers on the machine. If ipyrad can't be made to do this, is there another way to do de novo assembly of GBS data that will take advantage of this resource?</p>
  
Comments.ContentLicense: CC BY-SA 3.0
Comments.CreationDate: 2018-03-19T19:37:35.407Z
Comments.Text: GPU core ≠ CPU core. The two aren’t interchangeable.
Comments.UserDisplayName: Konrad Rudolph
Tags: <python><assembly><genotyping><radseq>
Title: Make ipyrad use cuda-enabled NVidia card on Ubuntu
ThreadText: # Make ipyrad use cuda-enabled NVidia card on Ubuntu
  
  (Asked by: username_0 on 2018-01-16)
  
  I want to use ipyrad on a new Ubuntu machine that has an NVidia Quadro K2000 card with 384 cores. One [can](http://ipyrad.readthedocs.io/HPC_script.html) configure ipyrad to run on a linux cluster. Do I have any options to get ipyrad to access these cores?
  
  I'm assuming that I will be able to install cuda drivers on the machine. If ipyrad can't be made to do this, is there another way to do de novo assembly of GBS data that will take advantage of this resource?
  
  **Tags:** python, assembly, genotyping, radseq
  
  > **Comments:**
  > **username_1**: GPU core ≠ CPU core. The two aren’t interchangeable.  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_2 on 2018-01-16. Score: 2
  
  You would have to get [CUDA Python](https://developer.nvidia.com/how-to-cuda-python) set up on your system and likely modify ipyrad to actually use it (for example, by incorporating [numba](http://numba.pydata.org/)). So while this is possible, it will require significant effort on your part. In general, there are very few bioinformatics tools that support GPUs.
  
  
  ---
  
  