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Update README.md
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pontikos committed May 15, 2017
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Expand Up @@ -89,7 +89,7 @@ mvn clean package
```
Copy `graph-bundle.zip` to your target server and extract it.
#### Update config file to reference your input data ###
In the conf folder of the extracted zip above, update `config.properties` to reference your input data.
In the conf folder of the extracted zip above, update [config.properties](https://github.com/phenopolis/pheno4j/blob/master/src/main/resources/config.properties) to reference your input data.
#### Run the GraphDatabaseBuilder ###
This step will take all the input data and build csv files, which are then built into a Neo4j database using their ImportTool. Constraints and Indexes are then created.
In the lib folder of the extracted zip above, run the following:
Expand All @@ -101,7 +101,7 @@ java -cp *:../conf/ com.graph.db.GraphDatabaseBuilder
cd $NEO4J_HOME/data/databases
ln -s ${output.folder}/graph-db/data/databases/graph.db graph.db
```
${output.folder} is defined in config.properties
${output.folder} is defined in [config.properties](https://github.com/phenopolis/pheno4j/blob/master/src/main/resources/config.properties)
### Update Neo4j config ###
Ideally you should hold as much of the data in memory as possible ([See here for more information](https://neo4j.com/docs/operations-manual/current/performance/))
Set the value of `dbms.memory.pagecache.size` in ${NEO4J_HOME}/conf/neo4j.conf to the size of the files: `NEO4J_HOME/data/databases/graph.db/*store.db*`
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