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The database includes new schemas (i2b2hive, i2b2imdata, i2b2pm, i2b2workdata) to support a full i2b2 database. All i2b2-specific tables have their initial contents defined as for a standard i2b2 installation.
Schema amapp
Tables defining metadata terms for Browse tab annotation. New terms for Study and Program are defined.
Schema biomart
Schema biomart_stage
Schema biomart_user
Schema deapp
Schema fmapp
Schema galaxy
Schema gwas_plink
Schema i2b2demodata
The default password for this user/role is changed to the i2b2 defauilt 'demouser'.
Schema i2b2hive
This standard i2b2 schema is new to tranSMART in 19.1.
Preloaded with the same metadata as a new i2b2 installation.
Schema i2b2imdata
This standard i2b2 schema is new to tranSMART in 19.1.
Schema i2b2metadata
The default password for this user/role is changed to the i2b2 defauilt 'demouser'.
Schema i2b2pm
This standard i2b2 schema is new to tranSMART in 19.1.
Preloaded with the same metadata as a new i2b2 installation.
Schema i2b2workdata
This standard i2b2 schema is new to tranSMART in 19.1.
Schema searchapp
Search keyword data is updated.
Schema tm_cz
Schema tm_lz
Schema tm_wz
Schema ts_batch
Data dictionaries
The pre-loaded metadata from Entrez (genes for human and mouse) and Medline (disease MeSH terms) has been updated.
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New placeholders are provided for org.transmart.i2b2.view.enable to enable viewing i2b2 data, and for com.recomdata.transmartIntro and com.recomdata.transmartWelcome to display alternative HTML text on the Browse and Login pages. transmartInto replaces the default Browse tab introductory text. transmartWelcome is an additional paragraph that appears below.
Database comparison script
The ora-pg-compare.pl script is extended to compare PostgresQL and Oracle database definitions for tranSMART and i2b2.
This script is used to keep database definitions for both platforms tranSMART and i2b2 in sync.
Scripts
Installation
Install scripts
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