Run scenario flowchart

The following flowchart can hopefully help you understand which converter and recipe you need to run. If running from the source files, simply follow the equivalences described in the Run ontology conversion and Run data samples conversion sections (a quick study of the content of the Makefile recipes might help you).

The flowchart does not include:

  • Folder structure configuration

  • Editing of the configuration files

  • Modifying of the environment variables

    Start on blue!

My RDF input consists in...
My RDF input consists in...
Ontology or 
Data samples?
Ontology or...
Split them, start over
Split them, start over
Both
Both
Do I have the i2b2
 CSV ontology files ?
Do I have the i2b2...
Separated or merged ?
Separated or merged ?
Separated
Separated
Verbose or
production-ready?
Verbose or...
Yes
Yes
Is it my job to QA the converted data ?
Is it my job to QA the con...
Data
Data
Ontology
Ontology
Go to red
Go to red
Merged
Merged
Yes
Yes
Get the i2b2 VERBOSE
CSV ontology files from the project manager
Get the i2b2 VERBOSE...
Can the PM give me
 the i2b2 VERBOSE CSV ontology files?
Can the PM give me...
Get the RDF ontology files. Start over and choose
 the ontology path first
Get the RDF ontology files...
In the data converter docker, run make up
to get production-ready
data tables
In the data converter dock...
In the data converter docker, run make debug
In the data converter dock...
Happy with the content
of  the logs?
Happy with the content...
Production
Production
No
No
In the ontology converter docker, 
run make debug
to get _VERBOSE ontology
In the ontology converter...
In the ontology converter docker,
run make up
to get production-ready 
ontology files
In the ontology converter...
No
No
Save the _VERBOSE tables for QA of the data conversion
Save the _VERBOSE tables f...
No
No
Verbose
Verbose
Run the conversion script
make prod
Run the conversion script...
SUCCESS
SUCCESS
Check your RDF data graph and your configuration files, then start over
Check your RDF data graph...
Yes
Yes
No
No
Yes
Yes
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