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In bulk we are handling database population differently than in scxa. We are doing that via our application's admin endpoint:
We are using this endpoint for DB operations:
http://$TOMCAT_HOST/gxa/admin/experiments/${expAcc}/${WEB_APP_CALL}
where
expAcc: the Experiment accession ID
WEB_APP_CALL: import_public or coexpression_update
Tasks:
Add load_exp_design.sh shell script into the relevant docker compose file
Add experiment design table(s) population into that above endpoint
Execute the postgres step from the env creation steps and check whether the DB tables (exp_design_column and exp_design) has been populated
The text was updated successfully, but these errors were encountered:
We need to able to load the experiment design data for each experiments to the PostgreSQL database.
For that purpose we can use a script from thedb-scxa
repository: https://github.com/ebi-gene-expression-group/db-scxa/blob/develop/bin/load_exp_design.sh.We have a tested example in our
single cell repo
: https://github.com/ebi-gene-expression-group/atlas-web-single-cell/blob/092fea1d41f4075fc66225d3359f23173fc7141a/docker/prepare-dev-environment/postgres/docker-compose.yml#L55We could reuse that.
In
bulk
we are handling database population differently than inscxa
. We are doing that via our application's admin endpoint:We are using this endpoint for DB operations:
http://$TOMCAT_HOST/gxa/admin/experiments/${expAcc}/${WEB_APP_CALL}
where
import_public
orcoexpression_update
Tasks:
Addload_exp_design.sh
shell script into the relevant docker compose fileAdd experiment design table(s) population into that above endpoint
exp_design_column
andexp_design
) has been populatedThe text was updated successfully, but these errors were encountered: