logLevel: "INFO"
logFile: null

## number of seconds that session remains open
sessionDuration: 1200

## Default study when -s, --study are empty, e.g. "reference_grch37:1kG_phase3"
defaultStudy: ""

## Alias to different studies, these can be fully qualified: user@project:study
alias:
  1kg_grch37: hgvauser@reference_grch37:1kG_phase3
  1kg_grch38: reference_grch38:1kG_phase3

## The default organism values can be defined here.
organism:
  taxonomyCode: ${OPENCGA.CLIENT.ORGANISM.TAXONOMY_CODE}
  scientificName: ${OPENCGA.CLIENT.ORGANISM.SCIENTIFIC_NAME}
  commonName: ${OPENCGA.CLIENT.ORGANISM.COMMON_NAME}
  assembly: ${OPENCGA.CLIENT.ORGANISM.ASSEMBLY}

## REST client configuration options
rest:
  host: "${OPENCGA.CLIENT.REST.HOST}"
  batchQuerySize: 200
  timeout: ${OPENCGA.CLIENT.REST.TIMEOUT}
  defaultLimit: 2000

## gRPC configuration options
grpc:
  host: "${OPENCGA.CLIENT.GRPC.HOST}"

## Configure the default behaviour when query variants
variant:
  unknownGenotype: "0/0"
#   each study can have a different format
  includeFormats:
    1kg_grch37: "GT,AD,DP,GQ"