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1. Superset

1.1. Running using docker-compose

git clone https://github.com/ZSI-Bio/bdg-sequila.git
cd bdg-sequila/analytics_platform/sequila
./start.sh --master=local[2] --driver-memory=2g --data-dir=/Users/marek/data/bams --warehouse-dir=/Users/marek/data/warehouse --sequila-version=0.6.10 --superset-version=0.28.1

Params:

  • master- Apache Spark master to use, e.g. local[1]

  • diver-memory - Apache Spark driver memory, e.g. 4g

  • data-dir - a directory on the host machine containing alignment files used for table-mapping , e.g. /Users/marek/data/bams

  • warehouse-dir - a directory on the host machine for storing data files of the created tables, e.g. /Users/marek/data/warehouse

  • sequila-version - SeQuiLa image version to use, e.g. 0.6.10

  • superset-version - Apache Superset image version to use, e.g. 0.28.1