rdius/beyond-es-indexation

Beyond project

beyond-es-indexation

Please, provide the data-examples folder with these files:

-   taxon_habitats = "./data-examples/relations.full.tsv"
-   taxon_phenotypes = "./data-examples/phenotype-relations.full.tsv"
-   taxon_uses = "./data-examples/uses-relations.full.tsv"

Build the Jsonl file by using :

beyond_relations_preprocess.ipynb

Index Data to ES using Logstash

sudo /usr/share/logstash/bin/logstash -f 'beyond_conf.conf' #manage to give the absolute path for the .conf

NB : It's supposed that you have already installed ES and Logstash on your computer (or server). If not, check the guid below

ElasticSearch

https://www.elastic.co/guide/en/elasticsearch/reference/current/deb.html

kibana

https://www.elastic.co/guide/en/kibana/current/deb.html

START

sudo systemctl start elasticsearch.service #start lesaticserach

sudo systemctl start kibana.service #start kibana

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Dasboard for Beyond Advanced Queries

Dependances :

This app use streamlit as fontend. Use pip to install it

pip install streamlit

To run the app

streamlit run beyond_app.py --global.dataFrameSerialization="legacy"

ELK shoud be already installed & Data should be already indexed on an existing Index

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Interface & Examples

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