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| author | Frederick Muriuki Muriithi | 2022-02-23 14:51:47 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2022-03-03 10:20:04 +0300 |
| commit | 6d39c92fbc9a7b82cd8eef60c62cd5d83acb49a1 (patch) | |
| tree | 7efab53cc8fc367f433ac01ece95b0fbecc858d9 /gn3/computations/wgcna.py | |
| parent | 8e0fcfa78fcdb5bdd5b49e2b1ac918ae9cc0fc53 (diff) | |
| download | genenetwork3-6d39c92fbc9a7b82cd8eef60c62cd5d83acb49a1.tar.gz | |
Run partial correlations in an external process
Run the partial correlations code in an external python process decoupling it
from the server and making it asynchronous.
Summary of changes:
* gn3/api/correlation.py:
- Remove response processing code
- Queue partial corrs processing
- Create new endpoint to get results
* gn3/commands.py
- Compose the pcorrs command to be run in an external process
- Enable running of subprocess commands with list args
* gn3/responses/__init__.py: new module indicator file
* gn3/responses/pcorrs_responses.py: Hold response processing code extracted
from ~gn3.api.correlations.py~ file
* scripts/partial_correlations.py: CLI script to process the pcorrs
* sheepdog/worker.py:
- Add the *genenetwork3* path at the beginning of the ~sys.path~ list to
override any GN3 in the site-packages
- Add any environment variables to be set for the command to be run
Diffstat (limited to 'gn3/computations/wgcna.py')
0 files changed, 0 insertions, 0 deletions