.travis.yml

sudo: required
language: minimal
services:
  - docker
  - postgresql

notifications:
  email: false

env:
  #MEDCO_DB_NUMBER is the number of databases used in the profile that will be tested
  - MEDCO_DB_NUMBER=9 MEDCO_DB_HOST=localhost MEDCO_DB_PORT=5432 MEDCO_DB_USER=postgres MEDCO_DB_PASSWORD=postgres MEDCO_DB_NAME=postgres MEDCO_USER_USERNAME=test MEDCO_USER_PASSWORD=test


before_install:
  - cd ~/build/ldsec/medco-deployment/resources/data
  - bash download.sh
  - cd ~/build/ldsec/medco-deployment/compose-profiles/dev-local-3nodes
  - docker-compose build
  - docker-compose -f docker-compose.tools.yml pull medco-cli-client medco-loader-srv0 medco-loader-srv1 medco-loader-srv2

install:
  - docker-compose up -d
  - bash ~/build/ldsec/medco-deployment/resources/utility-scripts/wait_for_startup.sh $MEDCO_DB_NUMBER $MEDCO_DB_HOST $MEDCO_DB_PORT $MEDCO_DB_USER $MEDCO_DB_PASSWORD $MEDCO_DB_NAME
  - docker-compose -f docker-compose.tools.yml run medco-loader-srv0 v0 --ont_clinical /data/genomic/tcga_cbio/8_clinical_data.csv --sen /data/genomic/sensitive.txt --ont_genomic /data/genomic/tcga_cbio/8_mutation_data.csv --clinical /data/genomic/tcga_cbio/8_clinical_data.csv --genomic /data/genomic/tcga_cbio/8_mutation_data.csv --output /data/
  - docker-compose -f docker-compose.tools.yml run medco-loader-srv1 v0 --ont_clinical /data/genomic/tcga_cbio/8_clinical_data.csv --sen /data/genomic/sensitive.txt --ont_genomic /data/genomic/tcga_cbio/8_mutation_data.csv --clinical /data/genomic/tcga_cbio/8_clinical_data.csv --genomic /data/genomic/tcga_cbio/8_mutation_data.csv --output /data/
  - docker-compose -f docker-compose.tools.yml run medco-loader-srv2 v0 --ont_clinical /data/genomic/tcga_cbio/8_clinical_data.csv --sen /data/genomic/sensitive.txt --ont_genomic /data/genomic/tcga_cbio/8_mutation_data.csv --clinical /data/genomic/tcga_cbio/8_clinical_data.csv --genomic /data/genomic/tcga_cbio/8_mutation_data.csv --output /data/

script:
  - bash ~/build/ldsec/medco-deployment/resources/utility-scripts/test_e2e.sh $MEDCO_USER_USERNAME $MEDCO_USER_PASSWORD