Name: phinvads-sync-util
Owner: Centers for Disease Control and Prevention Surveillance Strategy
Description: null
Created: 2017-04-10 19:54:12.0
Updated: 2017-07-12 19:52:40.0
Pushed: 2017-07-12 20:07:21.0
Homepage: null
Size: 324
Language: Ruby
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This Github organization was created for use by CDC programs to collaborate on public health surveillance related projects in support of the CDC Surveillance Strategy. This third party web application is not hosted by the CDC, but is used by CDC and its partners to share information and collaborate on software.
This repository serves as a template for other repositories to follow in order to provide the appropriate notices for users in regards to privacy protection, contribution, licensing, copyright, records management and collaboration.
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The project utilizes code licensed under the terms of the Apache Software License and therefore is licensed under ASL v2 or later.
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Thanks to 18F's open source policy and code of conduct that were very useful in setting up this GitHub organization. Thanks to CDC's Informatics Innovation Unit that was helpful in modeling the code of conduct.
The software contained in this repository is used to sync the code systems and valuesets contained within PHIN VADS into an elasticsearch server.
Code systems are mapped into elastic search in 2 different indexes.
Code system meta data is contained in an index with the follwoing semantics.
/code_systems/code_system/{oid}
The codes for a given code system are mapped into elastic search in a separate index that allows for easy searching across code systems as well as scoping to individual code systems. The index is sturctured as follows.
Codes for individual code systems are added to the codes index scoped under the oid for the coded system that they come from. The codes are added individually and are not contained in any grouping structure. The {id} portion of the url described below is generated by Elasticsearch when a code is added to the index and is meaningless outside the context of elastic search
/codes/{oid}/{id}
Valuesets are synced into the elasticserach server as valueset versions. Within Phinvads the codes for a given valueset are mapped to versions of a given valueset. Keeping with that system the valuesets are mapped into elastic search as versions with the given url semantics
/valueset_versions/{oid}/{version_number}
Each of the versions is formated as a FHIR ValueSet object complete with the codes that they contain.
package
java -jar target/phinvads-sync-util.jar
ions]
-e, --elasticsearch elastic search host
-v, --vads PHINVADS api url
-o, --operation operation to run (sync_all, sync_vs[:oid:version], sync_cs[:oid])
-f, --force force reindex
jdk in the search bar is the fastest way to find it)JAVA_ARGS as -e http://${your_elasticsearch_host} -v https://phinvads.cdc.gov/vocabService/v2?no_proxy if necessary to reach your elasticsearch host or phinvads service