These aren't the droids you're looking for. You can go about your business.

Required Python modules:

• bottle
• oauth2
• rdflib
• rdfextras
• jinja2

cd rdflib-jsonld
sudo python setup.py install

This is an AppFog-ready app (Python/Bottle), the manifest.yml and requirements.txt files are included.

The app relies on code lookup against RxNorm and SNOMED. To make those lookups reasonably fast we need to setup a local database for these two terminologies.

The script databases/rxnorm.sh sets up a local SQLite database from a provided RxNORM download.

• download the latest RxNorm full release and unzip it
• run our script databases/rxnorm.sh (from inside that databases directory). It will create the database rxnorm.db.

Setting up SNOMED CT:

• download SNOMED CT and unzip it

• From the directory RF2Release/Full/Terminology place the following files under the given name into databases:

  • sct2_Description_Full-en_INT_xxxxxxx.txt: snomed_desc.csv
  • sct2_Relationship_Full_INT_xxxxxxxx.txt: snomed_rel.csv

  When these files are present, the app will automatically import all SNOMED codes into a local SQLite database, if this has not already been done.

Not currently used in the app, was testing RDF magic with 4store, to setup:

brew install 4store
4s-backend-setup test
4s-backend test
4s-httpd -p 7777 test

To import RxNorm:

cd databases
./rxnorm.sh
4s-import test rxnorm.nt

Adding our test patient's RDF and opening a SPARQL shell

4s-import test --add ../test.rdf
4s-query test