Download and install the Globus Search client https://github.com/globusonline/search-client. make install creates a virtual environment in .venv/ subdirectory, installs globus-sdk and all necessary Python modules the search-client depends on, so there is no need to set up a virtual environment prior installing the search-client. The search-client also takes care of getting an OAuth2 access token with an appropriate scope for the Globus Search.

To generate files with GIngest records, run

python gen_ingest.py

The script will generate one GMetaList per file with 100 GIngest records in each in gingest/ subdirectory. (The script generates a separate file for 100 GIngest records to avoid ConnectionError the requests module may raise when a large file is sent in the POST request, psf/requests#2422).

You can print the records using cat and Python json tool, for example:

cat gingest/GTEx_v7_gingest_0_100.json | python -mjson.tool

To ingest all metadata to a search index, run

search-client --index <UUID_of_the_index> ingest gingest/*

To query the index, run for example:

search-client --index <UUID_of_the_index> query '{"q":"never smoker"}'