You must have docker version 1.8 or higher ( check your version by running 'docker-compose -version' )
This project provides a docker-compose application which builds and installs the DINA-Web Collections data model from https://github.com/chicoreus/cco_poc/tree/master/src/main/resources/edu/harvard/huh/specify/datamodel/cco_full/db
It uses the mysql or mariadb database engine containers and a cco container to create the database schema.
# to build and start services:
make
# to connect to the database:
make connect
# to list tables
make show-tables
# to stop, remove and clean up services/resources:
make clean
# to make a backup of the datadir (shuts down the db engine,
# makes the backup, then starts it):
make backup-datadir
# to make a backup into sql format (with running system,
# using a single transaction):
make backup-sqldump
To populate the schema with data, the Makefile provides two targets:
make backup-sqldump # backs up with timestamp using mysqldump
make restore-sqldump # restores using latest sql dump
This means you can populate the database using your preferred method of loading data.
You can run or schedule the make backup-sqldump command at any time to dump the schema with data in it.
You can restore that data from any dump into a fresh instance of the database using make restore-sqldump, it will use the latest dump, see the Makefile for details.
To switch from mariadb to mysql, edit the docker-compose.yml file and uncomment the commented line that references the other image.
After running the 'make connect' you can validate the database by running commands i.e; 'show tables', 'desc taxon'
You can run make show-tables to list the tables, or use make connect and issue any valid command there:
+-------------------------------+
| Tables_in_cco |
+-------------------------------+
| DATABASECHANGELOG |
| DATABASECHANGELOGLOCK |
| accession |
| accessionagent |
| address |
| addressofrecord |
| agent |
| agentgeography |
| agentlink |
| agentname |
| agentnumberpattern |
| agentreference |
| agentrelation |
| agentspeciality |
| agentteam |
| attachment |
| attachmentencumberance |
| attachmentrelation |
| auditlog |
| biologicalattribute |
| borrow |
| catalogeditem |
| catalognumberseries |
| catitemencumberance |
| codetableint |
| collectingevent |
| collection |
| collector |
| coordinate |
| ctageclass |
| ctbiologicalattributetype |
| ctcoordinatetype |
| ctelectronicaddresstype |
| ctencumberancetype |
| ctlengthunit |
| ctmassunit |
| ctnumericattributetype |
| ctpicklistitem |
| ctransaction |
| ctrelationshiptype |
| cttextattributetype |
| deaccession |
| electronicaddress |
| encumberance |
| eventdate |
| geography |
| geographytreedef |
| geographytreedefitem |
| geologictimeperiod |
| geologictimeperiodtreedef |
| geologictimeperiodtreedefitem |
| georeference |
| gift |
| identifiableitem |
| identification |
| inference |
| loan |
| locality |
| localityencumberance |
| materialsample |
| numericattribute |
| othernumber |
| paleocontext |
| picklist |
| picklistitemint |
| preparation |
| principal |
| repositoryagreement |
| scope |
| storage |
| storagetreedef |
| storagetreedefitem |
| systemuser |
| systemuserprincipal |
| taxon |
| taxonencumberance |
| taxontreedef |
| taxontreedefitem |
| textattribute |
| transactionagent |
| transactionitem |
| unit |
+-------------------------------+
Tables are described in https://github.com/chicoreus/cco_poc in https://github.com/chicoreus/cco_poc/blob/master/src/main/resources/edu/harvard/huh/specify/datamodel/cco_full/db/tables.sql